U.S. patent application number 13/784407 was filed with the patent office on 2013-11-21 for modified antibody compositions, methods of making and using thereof.
The applicant listed for this patent is CytomX Therapetuics, Inc.. Invention is credited to Paul H. Bessette, Patrick Daugherty, Fred Gluck, Kathryn Kamath, Jason Sagert, Nancy E. Stagliano, James W. West.
Application Number | 20130309230 13/784407 |
Document ID | / |
Family ID | 42317225 |
Filed Date | 2013-11-21 |
United States Patent
Application |
20130309230 |
Kind Code |
A1 |
Stagliano; Nancy E. ; et
al. |
November 21, 2013 |
Modified Antibody Compositions, Methods of Making and Using
Thereof
Abstract
The present disclosure provides modified antibodies which
contain an antibody or antibody fragment (AB) modified with a
masking moiety (MM). Such modified antibodies can be further
coupled to a cleavable moiety (CM), resulting in activatable
antibodies (AAs), wherein the CM is capable of being cleaved,
reduced, photolysed, or otherwise modified. AAs can exhibit an
activatable conformation such that the AB is more accessible to a
target after, for example, removal of the MM by cleavage,
reduction, or photolysis of the CM in the presence of an agent
capable of cleaving, reducing, or photolysing the CM. The
disclosure further provides methods of making and using such
modified antibodies and activatable antibodies.
Inventors: |
Stagliano; Nancy E.; (Santa
Barbraa, CA) ; West; James W.; (Santa Barbara,
CA) ; Kamath; Kathryn; (Santa Barbara, CA) ;
Bessette; Paul H.; (Camarillo, CA) ; Gluck; Fred;
(Santa Barbara, CA) ; Sagert; Jason; (Santa
Barbara, CA) ; Daugherty; Patrick; (Santa Barbara,
CA) |
|
Applicant: |
Name |
City |
State |
Country |
Type |
CytomX Therapetuics, Inc. |
South San Francisco |
CA |
US |
|
|
Family ID: |
42317225 |
Appl. No.: |
13/784407 |
Filed: |
March 4, 2013 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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13624293 |
Sep 21, 2012 |
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13784407 |
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13455924 |
Apr 25, 2012 |
8513390 |
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13624293 |
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13315623 |
Dec 9, 2011 |
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13455924 |
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12686344 |
Jan 12, 2010 |
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13315623 |
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61144110 |
Jan 12, 2009 |
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61144105 |
Jan 12, 2009 |
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61249416 |
Oct 7, 2009 |
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61249441 |
Oct 7, 2009 |
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Current U.S.
Class: |
424/134.1 ;
435/69.6; 530/387.3 |
Current CPC
Class: |
A61K 2039/507 20130101;
C07K 16/2866 20130101; C07K 2319/30 20130101; A61P 11/00 20180101;
C07K 2317/92 20130101; A61P 13/00 20180101; G01N 33/6854 20130101;
C07K 16/00 20130101; C07K 16/30 20130101; C07K 2317/20 20130101;
A61P 25/00 20180101; C07K 16/18 20130101; C07K 14/001 20130101;
C07K 16/2896 20130101; A61P 35/00 20180101; C07K 16/2863 20130101;
C07K 16/241 20130101; A61P 43/00 20180101; C07K 16/2818 20130101;
A61P 29/00 20180101; C07K 2317/55 20130101; C07K 7/08 20130101;
C07K 2317/51 20130101; C07K 2319/31 20130101; A61P 37/04 20180101;
C07K 2317/622 20130101; A61K 47/6849 20170801; A61K 2039/505
20130101; C07K 16/2845 20130101; C07K 2317/34 20130101; C07K
2317/56 20130101; C07K 2317/94 20130101; C07K 2317/52 20130101;
A61K 39/3955 20130101; A61K 47/6845 20170801; A61P 9/00 20180101;
C07K 16/2875 20130101; A61P 15/00 20180101; C07K 16/28 20130101;
C07K 2317/515 20130101; G01N 33/6845 20130101; A61P 1/18 20180101;
C07K 7/06 20130101; A61P 13/08 20180101; C07K 2317/21 20130101;
C07K 16/22 20130101; C07K 2319/50 20130101; A61P 1/16 20180101;
C07K 2317/40 20130101 |
Class at
Publication: |
424/134.1 ;
530/387.3; 435/69.6 |
International
Class: |
C07K 16/18 20060101
C07K016/18 |
Claims
1. An isolated polypeptide comprising an antibody or antigen
binding fragment thereof (AB) that binds a target and a cleavable
moiety (CM) comprising an amino acid sequence selected from the
group consisting of PTNL (SEQ ID NO: 362), AANL (SEQ ID NO: 363),
and PTN (SEQ ID NO: 364), wherein the cleavable moiety is a
substrate for a protease.
2. The isolated polypeptide of claim 1, wherein the CM is cleaved
by at least legumain.
3. The isolated polypeptide of claim 1, wherein the CM is a
substrate for a protease that is co-localized in a tissue with the
target.
4. The isolated polypeptide of claim 1, wherein the antigen binding
fragment thereof is selected from the group consisting of a Fab
fragment, a F(ab').sub.2 fragment, a scFv, a scab, a dAb, a single
domain heavy chain antibody, and a single domain light chain
antibody.
5. The isolated polypeptide of claim 1, wherein the AB is linked
directly to the CM.
6. The isolated polypeptide of claim 1, wherein the AB is linked to
the CM via a linking peptide.
7. The isolated polypeptide of claim 1, wherein the isolated
polypeptide comprises a masking moiety (MM), wherein the MM has an
equilibrium dissociation constant for binding to the AB which is
greater than the equilibrium dissociation constant of the AB for
binding to the target.
8. The isolated polypeptide of claim 7, wherein the MM is a
polypeptide of about 2-40 amino acids in length.
9. The isolated polypeptide of claim 7, wherein the MM is linked to
the CM such that the isolated polypeptide in an uncleaved state
comprises the structural arrangement from N-terminus to C-terminus
as follows: MM-CM-AB or AB-CM-MM.
10. The isolated polypeptide of claim 9, wherein the isolated
polypeptide comprises a linking peptide between the MM and the
CM.
11. The isolated polypeptide of claim 9, wherein the isolated
polypeptide comprises a linking peptide between the CM and the
AB.
12. The isolated polypeptide of claim 9, wherein the isolated
polypeptide comprises a first linking peptide (LP1) and a second
linking peptide (LP2), and wherein the isolated polypeptide has the
structural arrangement from N-terminus to C-terminus as follows in
the uncleaved state: MM-LP1-CM-LP2-AB or AB-LP2-CM-LP1-MM.
13. The isolated polypeptide of claim 12, wherein the two linking
peptides need not be identical to each other.
14. The isolated polypeptide of claim 12, wherein each of LP1 and
LP2 is a peptide of about 1 to 20 amino acids in length.
15. The isolated polypeptide of claim 7, wherein the amino acid
sequence of the MM is different from that of the target and is no
more than 50% identical to the amino acid sequence of a natural
binding partner of the AB.
16. The isolated polypeptide of claim 7, wherein the MM does not
interfere or compete with the AB for binding to the target in a
cleaved state.
17. The polypeptide of claim 1, wherein the CM is resistant to
cleavage by one or more proteases selected from the group
consisting of KLK5, KLK7 and plasmin.
18. An isolated polypeptide comprising a cleavable moiety (CM)
comprising an amino acid sequence selected from the group
consisting of: a)
X.sub.1X.sub.2PX.sub.3VKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
366), where X.sub.1 is Ala, Arg, Asp, Glu, Lys, Pro, or Tyr;
X.sub.2 is Ala, Arg, Gln, Gly, His, Leu, Pro, Ser, Thr or Val;
X.sub.3 is Arg, Glu, Gly, Leu, Lys, Phe, Pro, or Ser; X.sub.4 is
Ala, Met, Ser, Thr, or Val; X.sub.5 is Leu, Met or Val; X.sub.6 is
Asp, Glu, Gly, Leu, Lys, Pro, Ser, Thr, or Val; and X.sub.7 is Arg,
Asp, Gln, Glu, Gly, Leu, Lys, Met, Phe, Ser, or Val; b)
X.sub.1X.sub.2PX.sub.3VKX.sub.4VX.sub.5X.sub.6 (SEQ ID NO: 367),
where X.sub.1 is Ala, Glu, Lys, or Pro; X.sub.2 is Arg, Gln, Gly,
His, or Leu; X.sub.3 is Arg, Glu, Lys, Phe, or Ser; X.sub.4 is Met,
Ser, or Val; X.sub.5 is Asp, Lys, Ser, or Thr; and X.sub.6 is Gln,
Glu, Gly, or Leu; c) X.sub.1X.sub.2PX.sub.3VKX.sub.4LX.sub.5X.sub.6
(SEQ ID NO: 368), where X.sub.1 is Asp, Glu, or Tyr; X.sub.2 is
Ala, Arg, Leu, or Val; X.sub.3 is Arg, Gly, Leu, or Lys; X.sub.4 is
Ala or Ser; X.sub.5 is Glu, Pro, or Val; and X.sub.6 is Leu, Lys,
Met, or Ser; d) X.sub.1X.sub.2PX.sub.3VKX.sub.4MX.sub.5X.sub.6 (SEQ
ID NO: 369), where X.sub.1 is Ala, Arg, Asp, Glu, or Pro; X.sub.2
is Arg, Pro, Ser, Thr, or Val; X.sub.3 is Leu, Lys, Pro, or Ser;
X.sub.4 is Met, Ser, Thr, or Val; X.sub.5 is Asp, Gly, Leu, Pro, or
Val; and X.sub.6 is Arg, Asp, Glu, Phe, or Val; e)
X.sub.1X.sub.2PX.sub.3MKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
370), where X.sub.1 is Ala, Asp, Arg, Glu, Gly, or Pro; X.sub.2 is
Arg, Glu, Lys, Phe, Pro, Ser, or Val; X.sub.3 is Arg, Asp, Glu,
His, Phe, Pro, Thr, or Val; X.sub.4 is Leu, Ser, or Thr; X.sub.5 is
Leu, Met, Phe, or Val; X.sub.6 is Ala, Arg, Gln, Gly, Pro, or Ser;
and X.sub.7 is Gly, His, Leu, Pro, or Trp; f)
X.sub.1X.sub.2PX.sub.3MKLFX.sub.5G (SEQ ID NO: 371), where X.sub.1
is Glu or Pro; X.sub.2 is Lys or Pro; X.sub.3 is Arg or Asp; and
X.sub.5 is Gln or Pro; g)
X.sub.1X.sub.2PX.sub.3MKSX.sub.4X.sub.5X.sub.6 (SEQ ID NO: 372),
where X.sub.1 is Arg, Asp, or Glu; X.sub.2 is Arg, Glu, or Ser;
X.sub.3 is Glu, Phe, or Val; X.sub.4 is Leu or Met; X.sub.5 is Ala,
Pro, or Ser; and X.sub.6 is Gly, Leu, or Trp; h)
X.sub.1X.sub.2PX.sub.3MKTX.sub.4X.sub.5X.sub.6 (SEQ ID NO: 373),
where X.sub.1 is Ala, Asp, or Gly; X.sub.2 is Phe, Ser, or Val;
X.sub.3 is His, Pro, or Thr; X.sub.4 is Leu, Phe, or Val; X.sub.5
is Arg, Gln, or Gly; and X.sub.6 is Leu, His, or Pro; i)
X.sub.1X.sub.2PSFKLVX.sub.3X.sub.4 (SEQ ID NO: 374), where X.sub.1
is Ala or Asn; X.sub.2 is Met or Pro; X.sub.3 is Asn or Thr; and
X.sub.4 is Ala or Gly; j)
X.sub.1X.sub.2PX.sub.3LKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
375), where X.sub.1 is Arg, Pro or Val; X.sub.2 is Ala, Phe, Pro,
or Val; X.sub.3 is Arg, Gln, Ser, or Val; X.sub.4 is Leu or Ser;
X.sub.5 is Ile, Leu, or Phe; X.sub.6 is Glu, Pro, Lys, or Val; and
X.sub.7 is Asp, Leu, Pro, or Trp; k)
X.sub.1X.sub.2PX.sub.3X.sub.4RX.sub.5X.sub.6X.sub.7X.sub.8 (SEQ ID
NO: 376), where X.sub.1 is Ala, Pro, Ser, or Val; X.sub.2 is Ala,
Ile, Leu, Phe, Pro, or Val; X.sub.3 is Arg, Asp, Glu, Lys, or Tyr;
X.sub.4 is Leu, Met, Phe, or Val; X.sub.5 is Leu, Met, Ser, or Val;
X.sub.6 is Met, Phe, or Val; X.sub.7 is Arg, Asp, Phe, Pro, or Ser;
and X.sub.8 is Glu, Met, Ser, or Val; and l) GLGTPRGLFA (SEQ ID NO:
290), wherein the cleavable moiety is a substrate for a
protease.
19. The isolated polypeptide of claim 18, wherein the CM comprises
the amino acid sequence of
X.sub.1X.sub.2PX.sub.3VKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
366), where X.sub.1 is Ala, Asp, or Glu; X.sub.2 is Ala, Arg, Gln,
Gly, His, Leu, Pro, Ser, Thr or Val; X.sub.3 is Glu or Lys; X.sub.4
is Ala, Met, Ser, Thr, or Val; X.sub.5 is Leu, Met or Val; X.sub.6
is Asp or Pro; and X.sub.7 is Glu; or the amino acid sequence of
X.sub.1X.sub.2PX.sub.3X.sub.4RX.sub.5X.sub.6X.sub.7X.sub.8 (SEQ ID
NO: 376), where X.sub.1 is Ala; X.sub.2 is Ala, Ile, Leu, Phe, Pro,
or Val; X.sub.3 is Glu or Lys; X.sub.4 is Leu, Met, Phe, or Val;
X.sub.5 is Leu, Met, Ser, or Val; X.sub.6 is Met, Phe, or Val;
X.sub.7 is Asp or Pro; and X.sub.8 is Glu.
20. The isolated polypeptide of claim 18, wherein the CM is cleaved
by at least plasmin.
21. The isolated polypeptide of claim 18, wherein the CM comprises
an amino acid sequence selected from the group consisting of: a)
the amino acid sequence of
X.sub.1X.sub.2PX.sub.3VKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
366) or X.sub.1X.sub.2PX.sub.3VKX.sub.4VX.sub.5X.sub.6 (SEQ ID NO:
367) and comprises an amino acid sequence selected from the group
consisting of EHPRVKVVSE (SEQ ID NO: 281), ALPSVKMVSE (SEQ ID NO:
287), KGPKVKVVTL (SEQ ID NO: 296), PRPFVKSVDQ (SEQ ID NO: 299), and
EQPEVKMVKG (SEQ ID NO: 306); b) the amino acid sequence of
X.sub.1X.sub.2PX.sub.3VKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
366) or X.sub.1X.sub.2PX.sub.3VKX.sub.4LX.sub.5X.sub.6 (SEQ ID NO:
368) and comprises an amino acid sequence selected from the group
consisting of ERPGVKSLVL (SEQ ID NO: 297), DLPLVKSLPS (SEQ ID NO:
308), EAPKVKALPK (SEQ ID NO: 309), and YVPRVKALEM (SEQ ID NO: 317);
c) the amino acid sequence of
X.sub.1X.sub.2PX.sub.3VKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
366) or X.sub.1X.sub.2PX.sub.3VKX.sub.4MX.sub.5X.sub.6 (SEQ ID NO:
369) and comprises an amino acid sequence selected from the group
consisting of ETPSVKTMGR (SEQ ID NO: 288), DRPKVKTMDF (SEQ ID NO:
291), RVPKVKVMLD (SEQ ID NO: 292), APPLVKSMVV (SEQ ID NO: 293), and
PSPPVKMMPE (SEQ ID NO: 365); d) the amino acid sequence of
X.sub.1X.sub.2PX.sub.3MKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
370) or X.sub.1X.sub.2PX.sub.3MKLX.sub.4X.sub.5X.sub.6 (SEQ ID NO:
371) and comprises an amino acid sequence selected from the group
consisting of PPPDMKLFPG (SEQ ID NO: 282) and EKPRMKLFQG (SEQ ID
NO: 316); e) the amino acid sequence of
X.sub.1X.sub.2PX.sub.3MKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
370) or X.sub.1X.sub.2PX.sub.3MKSX.sub.4X.sub.5X.sub.6 (SEQ ID NO:
372) and comprises an amino acid sequence selected from the group
consisting of REPFMKSLPW (SEQ ID NO: 294), ESPVMKSMAL (SEQ ID NO:
301), and DRPEMKSLSG (SEQ ID NO: 305); f) the amino acid sequence
of X.sub.1X.sub.2PX.sub.3MKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
370) or X.sub.1X.sub.2PX.sub.3MKTX.sub.4X.sub.5X.sub.6 (SEQ ID NO:
373) and comprises an amino acid sequence selected from the group
consisting of GFPHMKTFQH (SEQ ID NO: 310), ASPTMKTVGL (SEQ ID NO:
312), and DVPPMKTLRP (SEQ ID NO: 313); g) the amino acid sequence
of X.sub.1X.sub.2PSFKLVX.sub.3X.sub.4 (SEQ ID NO: 374) and
comprises an amino acid sequence selected from the group consisting
of APPSFKLVNA (SEQ ID NO: 285) and NMPSFKLVTG (SEQ ID NO: 304); h)
the amino acid sequence of
X.sub.1X.sub.2PX.sub.3LKX.sub.4X.sub.5X.sub.6X.sub.7 (SEQ ID NO:
375) and comprises an amino acid sequence selected from the group
consisting of PPPVLKLLEW (SEQ ID NO: 283), PVPRLKLIKD (SEQ ID NO:
295), RFPSLKSFPL (SEQ ID NO: 300), and VAPQLKSLVP (SEQ ID NO: 302);
and i) the amino acid sequence of
X.sub.1X.sub.2PX.sub.3X.sub.4RX.sub.5X.sub.6X.sub.7X.sub.8 (SEQ ID
NO: 376) and comprises an amino acid sequence selected from the
group consisting of VLPELRSVFS (SEQ ID NO: 284), PPPEVRSFSV (SEQ ID
NO: 286), AIPRVRLFDV (SEQ ID NO: 289), AVPKVRVVPE (SEQ ID NO: 307),
AFPDMRSVRS (SEQ ID NO: 314), and SAPYFRMMDM (SEQ ID NO: 315).
22. The isolated polypeptide of claim 18, wherein the CM comprises
an amino acid sequence selected from the group consisting of
APPLVKSMVV (SEQ ID NO: 293), PRPFVKSVDQ (SEQ ID NO: 299),
NMPSFKLVTG (SEQ ID NO: 304), GFPHMKTFQH (SEQ ID NO: 310), and
ASPTMKTVGL (SEQ ID NO: 312); and wherein the cleavable moiety is a
substrate for a protease.
23. The isolated polypeptide of claim 18, wherein the isolated
polypeptide comprises an antibody or antigen binding fragment
thereof (AB) that binds a target.
24. The isolated polypeptide of claim 23, wherein the isolated
polypeptide comprises a masking moiety (MM), wherein the MM has an
equilibrium dissociation constant for binding to the AB which is
greater than the equilibrium dissociation constant of the AB for
binding to the target.
25. The isolated polypeptide of claim 18, wherein the CM is
resistant to cleavage by one or more proteases selected from the
group consisting of MMP-9, KLK5 and KLK7.
26. An isolated polypeptide comprising an antibody or antigen
binding fragment thereof (AB) that binds a target and a cleavable
moiety (CM) comprising the amino acid sequence DEVD (SEQ ID NO:
379), wherein the cleavable moiety is a substrate for a
protease.
27. The isolated polypeptide of claim 26, wherein the CM is cleaved
by at least caspase.
28. The isolated polypeptide of claim 26, wherein the isolated
polypeptide comprises a masking moiety (MM), wherein the MM has an
equilibrium dissociation constant for binding to the AB which is
greater than the equilibrium dissociation constant of the AB for
binding to the target.
29. The isolated polypeptide of claim 26, wherein the CM is
resistant to cleavage by one or more proteases selected from the
group consisting of KLK5, KLK7, and plasmin.
30. A method of manufacturing the isolated polypeptide of claim 1,
the method comprising culturing a cell comprising a nucleic acid
construct that encodes the isolated polypeptide under conditions
that lead to expression of the isolated polypeptide.
31. A method of manufacturing the isolated polypeptide of claim 18,
the method comprising culturing a cell comprising a nucleic acid
construct that encodes the isolated polypeptide under conditions
that lead to expression of the isolated polypeptide.
32. A method of manufacturing the isolated polypeptide of claim 26,
the method comprising culturing a cell comprising a nucleic acid
construct that encodes the isolated polypeptide under conditions
that lead to expression of the isolated polypeptide.
33. A method of treating a neoplasm, an autoimmune disease or an
inflammatory disease or inhibiting angiogenesis in a subject, the
method comprising administering a therapeutically effective amount
of the isolated polypeptide of claim 1 to a subject in need
thereof.
34. A method of treating a neoplasm, an autoimmune disease or an
inflammatory disease or inhibiting angiogenesis in a subject, the
method comprising administering a therapeutically effective amount
of the isolated polypeptide of claim 18 to a subject in need
thereof.
35. A method of treating a neoplasm, an autoimmune disease or an
inflammatory disease or inhibiting angiogenesis in a subject, the
method comprising administering a therapeutically effective amount
of the isolated polypeptide of claim 26 to a subject in need
thereof.
Description
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] This application is a continuation of U.S. patent
application Ser. No. 13/624,293, filed Sep. 21, 2012, which is a
continuation of U.S. patent application Ser. No. 13/455,924, filed
Apr. 25, 2012, which is a continuation of U.S. patent application
Ser. No. 13/315,623, filed Dec. 9, 2011, which is a continuation of
U.S. patent application Ser. No. 12/686,344, filed Jan. 12, 2010,
which claimed the benefit of U.S. Provisional Applications Nos.
61/144,110, filed Jan. 12, 2009; 61/144,105, filed Jan. 12, 2009;
61/249,441, filed Oct. 7, 2009; and 61/249,416, filed Oct. 7, 2009;
which applications are incorporated herein by reference in their
entirety.
SEQUENCE LISTING
[0002] The contents of the text file named "514C04USeqList.txt,"
which was created on Mar. 4, 2013 and is 204 KB in size, are hereby
incorporated by reference in their entirety.
BACKGROUND OF THE INVENTION
[0003] Protein-based therapies have changed the face of medicine,
finding application in a variety of different diseases. In
particular antibody-based therapies have proven effective
treatments for some diseases but in some cases, toxicities due to
broad target expression have limited their therapeutic
effectiveness.
[0004] As with any drugs, however, the need and desire for drugs
having improved specificity and selectivity for their targets is of
great interest, especially in developing second generation of
antibody-based drugs having known targets to which they bind.
Increased targeting of antibody to the disease site could reduce
systemic mechanism-based toxicities and lead to broader therapeutic
utility.
[0005] In the realm of small molecule drugs, strategies have been
developed to provide prodrugs of an active chemical entity. Such
prodrugs are administered in a relatively inactive (or
significantly less active) form. Once administered, the prodrug is
metabolized in vivo into the active compound. Such prodrug
strategies can provide for increased selectivity of the drug for
its intended target and for a reduction of adverse effects. Drugs
used to target hypoxic cancer cells, through the use of
redox-activation, utilize the large quantities of reductase enzyme
present in the hypoxic cell to convert the drug into its cytotoxic
form, essentially activating it. Since the prodrug has low
cytotoxicity prior to this activation, there is a markedly
decreased risk of damage to non-cancerous cells, thereby providing
for reduced side-effects associated with the drug. There is a need
in the field for a strategy for providing features of a prodrug to
antibody-based therapeutics.
SUMMARY OF THE INVENTION
[0006] The present disclosure provides for modified and activatable
antibody compositions useful for therapeutics and diagnostics. The
activatable antibody compositions exhibit increased bioavailability
and biodistribution compared to conventional antibody therapeutics
with prodrug features. Also provided are methods for use in
diagnostics and therapeutics, as well as screening for and
construction of such compositions.
[0007] In one aspect, the present disclosure provides a modified
antibody comprising an antibody or antibody fragment (AB), capable
of specifically binding its target, coupled to a masking moiety
(MM), wherein the coupling of the MM reduces the ability of the AB
to bind its target such that that the dissociation constant
(K.sub.d) of the AB coupled to the MM towards the target is at
least 100 times greater, at least 1000 times greater, or at least
10,000 times greater than the K.sub.d of the AB not coupled to the
MM towards the target.
[0008] In another aspect, the present disclosure provides a
modified antibody comprising an antibody or antibody fragment (AB),
capable of specifically binding its target, coupled to a masking
moiety (MM), wherein the coupling of the MM to the AB reduces the
ability of the AB to bind the target by at least 90%, as compared
to the ability of the AB not coupled to the MM to bind the target,
when assayed in vitro using a target displacement assay. Such
coupling of the MM to the AB reduces the ability of the AB to bind
its target for at least 12 hours or for at least 24 hours or for at
least 72 hours.
[0009] In another aspect, the modified antibody is further coupled
to a cleavable moiety (CM). The CM is capable of being cleaved by
an enzyme, or the CM is capable of being reduced by a reducing
agent, or the CM is capable of being photolysed. The CM is capable
of being specifically cleaved, reduced, or photolysed at a rate of
about at least 1.times.10.sup.4 M.sup.-1 S.sup.-1, or at least
5.times.10.sup.4 M.sup.-1 S, or at least 10.times.10.sup.4 M.sup.-1
S. In one embodiment, the CM of the modified antibody is be within
the MM.
[0010] The dissociation constant (K.sub.d) of the MM towards the AB
in the modified antibodies provided herein is usually at least 100
times greater than the K.sub.d of the AB towards the target.
Generally, the K.sub.d of the MM towards the AB is lower than 10
nM, or lower than 5 nM, or about 1 nM.
[0011] In some embodiments, the MM of the modified antibody reduces
the AB's ability to bind its target by specifically binding to the
antigen-binding domain of the AB. Such binding can be non-covalent.
The MM of the modified antibody can reduce the AB's ability to bind
its target allosterically or sterically. In specific embodiments,
the MM of the modified antibody does not comprise more than 50%
amino acid sequence similarity to a natural binding partner of the
AB.
[0012] In specific embodiments, the AB of the modified antibody is
an antibody fragment that is selected from the group consisting of
a Fab' fragment, a F(ab') 2 fragment, a scFv, a scAB a dAb, a
single domain heavy chain antibody, and a single domain light chain
antibody.
[0013] In related embodiments, the AB of the modified antibody is
selected from the group consisting of the antibodies in Table 2 or
specifically the source of the AB is cetuximab, panitumumab,
infliximab, adalimumab, efalizumab, ipilimumab, tremelimumab,
adecatumumab, Hu5c8, alemtuzumab, ranibizumab, tositumomab,
ibritumomab tiuxetan, rituximab, infliximab, bevacizumab, or
figitumumab. In a specific embodiment, the modified antibody is not
alemtuzumab.
[0014] In related embodiments, the target of the AB is selected
from the group consisting of the targets in Table 1. In exemplary
embodiments, the target is EGFR, TNFalpha, CD11a, CSFR, CTLA-4,
EpCAM, VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3, Notch 4, Jagged
1, Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130, VCAM-1, CD44,
DLL4, or IL4. In one specific embodiment the target is not
CD52.
[0015] In a specific embodiment, the modified antibody further
comprises a second AB wherein the target for the second AB is
selected from the group consisting of the targets in Table 1.
[0016] In related embodiments, the CM is a substrate for an enzyme
selected from the group consisting of the enzymes in Table 3. In
specific embodiments the CM is a substrate for legumain, plasmin,
TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase, human neutrophil
elastase, beta-secretase, uPA, or PSA. In such embodiments, where
the modified AB comprises a CM, the AB is selected from the group
consisting of the antibodies in Table 2; and specifically can be
from cetuximab, panitumumab, infliximab, adalimumab, efalizumab,
ipilimumab, tremelimumab, adecatumumab, Hu5c8, alemtuzumab,
ranibizumab, tositumomab, ibritumomab tiuxetan, rituximab,
infliximab, bevacizumab, or figitumumab. In one exemplary
embodiment, the AB is not alemtuzumab.
[0017] In one embodiment where the modified antibody comprises an
AB, coupled to a CM and a MM, the target is selected from the group
consisting of the targets in Table 1; or the target is EGFR,
TNFalpha, CD11a, CSFR, CTLA-4, EpCAM, VEGF, CD40, CD20, Notch 1,
Notch 2, Notch 3, Notch 4, Jagged 1, Jagged 2, CD52, MUC1, IGF1R,
transferrin, gp130, VCAM-1, CD44, DLL4, or IL4. In one exemplary
embodiment, the target is not CD52.
[0018] The modified antibody can be further coupled to a second
cleavable moiety (CM), capable of being specifically modified by an
enzyme. In this embodiment, the second cleavable is a substrate for
legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase,
human neutrophil elastase, beta-secretase, uPA, or PSA.
[0019] In another specific embodiment, the modified antibody
further comprises a linker peptide, wherein the linker peptide is
positioned between the AB and the MM; or the modified antibody
further comprises a linker peptide, wherein the linker peptide is
positioned between the MM and the CM; or the modified antibody
further comprises a linker peptide, wherein the linker peptide is
positioned between the AB and the CM; or the modified antibody
further comprises two linker peptides, wherein the first linker
peptide is between the AB and the CM and the second linker peptide
is positioned between the MM and the CM. The linker is selected
from the group consisting of a cleavable linker, a non-cleavable
linker, and a branched linker.
[0020] In certain embodiments, the modified antibody further
comprises a detectable moiety. In one specific embodiment, the
detectable moiety is a diagnostic agent.
[0021] In one particular embodiment, the modified antibodies
described herein further comprise an agent conjugated to the AB. In
one aspect, the agent is a therapeutic agent, for example an
antineoplastic agent. In such embodiments, the agent is conjugated
to a carbohydrate moiety of the AB, wherein the carbohydrate moiety
can be located outside the antigen-binding region of the AB.
Alternatively the agent is conjugated to a sulfhydryl group of the
AB.
[0022] The modified antibodies provided herein exhibit a serum
half-life of at least 5 days when administered to an organism.
[0023] The consensus sequence of the MM of some of the modified
antibodies provided herein is CISPRGC (SEQ ID NO: 1),
C(N/P)H(H/V/F)(Y/T)(F/W/T/L)(Y/G/T/S)(T/S/Y/H)CGCISPRGCG (SEQ ID
NO: 2), xCxxYQCLxxxxxx (SEQ ID NO: 3), XXQPxPPRVXX (SEQ ID NO: 4),
PxPGFPYCxxxx (SEQ ID NO: 5), xxxxQxxPWPP (SEQ ID NO: 6),
GxGxCYTILExxCxxxR (SEQ ID NO: 7), GxxxCYxIxExxCxxxx (SEQ ID NO: 8),
GxxxCYxIxExWCxxxx (SEQ ID NO: 9), xxxCCxxYxIxxCCxxx (SEQ ID NO:
10), or xxxxxYxILExxxxx (SEQ ID NO: 11). In a specific embodiment,
the consensus sequence is specific for binding to an anti-VEGF
antibody, an anti-EFGR antibody, or an anti-CTLA-4 antibody.
[0024] In a related aspect, the present disclosure provides for an
activatable antibody (AA) comprising an antibody or antibody
fragment (AB), capable of specifically binding its target; a
masking moiety (MM) coupled to the AB, capable of inhibiting the
specific binding of the AB to its target; and a cleavable moiety
(CM) coupled to the AB, capable of being specifically cleaved by an
enzyme; wherein when the AA is not in the presence of sufficient
enzyme activity to cleave the CM, the MM reduces the specific
binding of the AB to its target by at least 90% when compared to
when the AA is in the presence of sufficient enzyme activity to
cleave the CM and the MM does not inhibit the specific binding of
the AB to its target. In specific embodiments, the binding of the
AB to its target is reduced for at least 12 hours, or for at least
24 hours, or for at least 72 hours.
[0025] In one embodiment, in the AA, the dissociation constant
(K.sub.d) of the AB coupled to the MM and CM towards the target is
at least 100 times greater than the K.sub.d of the AB not coupled
to the MM and CM towards the target. In a related embodiment, the
dissociation constant (K.sub.d) of the MM towards the AB is at
least 100 times greater than the K.sub.d of the AB towards the
target. Generally, the K.sub.d of the MM towards the AB is lower
than 10 nM, or lower than 5 nM, or about 1 nM.
[0026] In some embodiments of the AA, the MM is capable of
specifically binding to the antigen-binding domain of the AB.
[0027] In some embodiments of the AA the CM is capable of being
specifically cleaved by an enzyme at a rate of about at least
1.times.10.sup.4 M.sup.-1 S.sup.-1, or at least 5.times.10.sup.4
M.sup.-1 S.sup.-, or at least 10.times.10.sup.4 M.sup.-1 S.
[0028] In certain embodiments, of the AA where the AB is an
antibody fragment, the antibody fragment is selected from the group
consisting of a Fab' fragment, a F(ab') 2 fragment, a scFv, a scAB
a dAb, a single domain heavy chain antibody, and a single domain
light chain antibody.
[0029] In certain embodiments, the AB of the AA is selected from
the group consisting of the antibodies in Table 2. In specific
embodiments, the AB is cetuximab, panitumumab, infliximab,
adalimumab, efalizumab, ipilimumab, tremelimumab, adecatumumab,
Hu5c8, alemtuzumab, ranibizumab, tositumomab, ibritumomab tiuxetan,
rituximab, infliximab, bevacizumab, or figitumumab.
[0030] In certain embodiments, the target of the AA is selected
from the group consisting of the targets in Table 1. In specific
embodiments, the target is EGFR, TNFalpha, CD11a, CSFR, CTLA-4,
EpCAM, VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3, Notch 4, Jagged
1, Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130, VCAM-1, CD44,
DLL4, or IL4.
[0031] In one specific embodiment the AB is not alemtuzumab and
target is not CD52.
[0032] In certain embodiments, the CM of the AA is a substrate for
legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase,
human neutrophil elastase, beta-secretase, uPA, or PSA. In specific
embodiments, the AA is further coupled to a second cleavable moiety
(CM), capable of being specifically modified by an enzyme. In this
embodiment, the second CM is a substrate for legumain, plasmin,
TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase, human neutrophil
elastase, beta-secretase, uPA, or PSA.
[0033] In some embodiments of the AAs provided herein, the CM is
located within the MM.
[0034] In some embodiments of the AAs provided herein, the MM does
not comprise more than 50% amino acid sequence similarity to a
natural binding partner of the AB.
[0035] In some embodiments the AA further comprises a linker
peptide, wherein the linker peptide is positioned between the MM
and the CM. In specific embodiments, the linker peptide is
positioned between the AB and the CM.
[0036] In certain embodiments, the AAs provided herein further
comprise a detectable moiety or an agent conjugated to the AB.
[0037] In yet another aspect, the present disclosure provides for
an activatable antibody complex (AAC) comprising: two antibodies or
antibody fragments (AB1 and AB2), each capable of specifically
binding its target; at least one masking moiety (MM) coupled to
either AB1 or AB2, capable of inhibiting the specific binding of
AB1 and AB2 to their targets; and at least one cleavable moiety
(CM) coupled to either AB1 or AB2, capable of being specifically
cleaved by an enzyme whereby activating the AAC composition;
wherein when the AAC is in an uncleaved state, the MM inhibits the
specific binding of AB1 and AB2 to their targets and when the AAC
is in a cleaved state, the MM does not inhibit the specific binding
of AB1 and AB2 to their targets.
[0038] In one embodiment, the AAC is bispecific, wherein AB1 and
AB2 bind the same epitope on the same target; or the AB 1 and AB2
bind to different epitopes on the same target; or the AB 1 and AB2
bind to different epitopes on different targets.
[0039] In one embodiment of the AAC, the CM is capable of being
specifically cleaved by an enzyme at a rate of about at least
1.times.10.sup.4 M.sup.-1 S.sup.-1.
[0040] In the embodiments where AB1 or AB2 of the AAC is an
antibody fragment, the antibody fragment is selected from the group
consisting of a Fab' fragment, a F(ab')2 fragment, a scFv, a scAB a
dAb, a single domain heavy chain antibody, and a single domain
light chain antibody.
[0041] In an embodiment of the AAC, the AB1 and/or AB 2 are
selected from the group consisting of the antibodies in Table 2. In
a specific embodiment, the AB1 and/or AB2 is cetuximab,
panitumumab, infliximab, adalimumab, efalizumab, ipilimumab,
tremelimumab, adecatumumab, Hu5c8, alemtuzumab, ranibizumab,
tositumomab, ibritumomab tiuxetan, rituximab, infliximab,
bevacizumab, or figitumumab.
[0042] In an embodiment of the AAC, the target for the AB1 and/or
AB2 is selected from the group consisting of the targets in Table
1. In a related embodiment, the target of the AB1 and/or AB2 is
EGFR, TNFalpha, CD11a, CSFR, CTLA-4, EpCAM, VEGF, CD40, CD20, Notch
1, Notch 2, Notch 3, Notch 4, Jagged 1, Jagged 2, CD52, MUC1,
IGF1R, transferrin, gp130, VCAM-1, CD44, DLL4, or IL4. In a
specific embodiment, the AB1 and AB2 are capable of binding to EGFR
and VEGF, a Notch Receptor and EGFR, a Jagged ligand and EGFR or
cMET and VEGF, respectively.
[0043] In a related AAC embodiment, the CM is a substrate for an
enzyme selected from the group consisting of the enzymes in Table
3. In a specific embodiment, the CM is a substrate for legumain,
plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase, human
neutrophil elastase, beta-secretase, uPA, or PSA. In yet another
specific embodiment, the AAC is further coupled to a second
cleavable moiety (CM), capable of being specifically cleaved by an
enzyme and the second CM is a substrate for legumain, plasmin,
TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase, human neutrophil
elastase, beta-secretase, uPA, or PSA.
[0044] In specific embodiments of the AAC, the MM does not comprise
more than 50% amino acid sequence similarity to a natural binding
partner of the AB.
[0045] In other specific embodiments of the AAC, the AAC further
comprises a detectable moiety or is further conjugated to an
agent.
[0046] Also provided herein is a method of treating or diagnosing a
condition in a subject including administering to the subject a
composition comprising: an antibody or antibody fragment (AB),
capable of specifically binding its target; a masking moiety (MM)
coupled to the AB, capable of inhibiting the specific binding of
the AB to its target; and a cleavable moiety (CM) coupled to the
AB, capable of being specifically cleaved by an enzyme; wherein
upon administration to the subject, when the AA is not in the
presence of sufficient enzyme activity to cleave the CM, the MM
reduces the specific binding of the AB to its target by at least
90% when compared to when the AA is in the presence of sufficient
enzyme activity to cleave the CM and the MM does not inhibit the
specific binding of the AB to its target.
[0047] In this method, the AB is selected from the group consisting
of a Fab' fragment, a F(ab') 2 fragment, a scFv, a scAB a dAb, a
single domain heavy chain antibody, and a single domain light chain
antibody.
[0048] In as specific embodiment, the condition is cancer.
[0049] In another specific embodiment, the MM is not the natural
binding partner of the AB.
[0050] In various embodiments of the method, the AB is selected
from the group consisting of the antibodies in Table 2.
Specifically in some embodiments, the AB is cetuximab, panitumumab,
infliximab, adalimumab, efalizumab, ipilimumab, tremelimumab,
adecatumumab, Hu5c8, alemtuzumab, ranibizumab, tositumomab,
ibritumomab tiuxetan, rituximab, infliximab, bevacizumab, or
figitumumab.
[0051] In various embodiments of the method, the target is selected
from the group of targets in Table 1. In specific embodiments, the
target is EGFR, TNFalpha, CD11a, CSFR, CTLA-4, EpCAM, VEGF, CD40,
CD20, Notch 1, Notch 2, Notch 3, Notch 4, Jagged 1, Jagged 2, CD52,
MUC1, IGF1R, transferrin, gp130, VCAM-1, CD44, DLL4, or IL4.
[0052] In a very specific embodiment of the method the AB is not
alemtuzumab and the target is not CD52.
[0053] In various embodiments of the method, the CM is a substrate
for an enzyme selected from the group consisting of the enzymes in
Table 3. In specific embodiments, the CM is a substrate for
legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase,
human neutrophil elastase, beta-secretase, uPA, or PSA.
[0054] Also provided herein is a method of inhibiting angiogenesis
in a mammalian subject, the method comprising administering to a
subject in need thereof a therapeutically effective amount of a
pharmaceutical composition comprising a modified AB, an AA, an AAC,
or an AACJ wherein the target is EGFR, TNFalpha, CD11a, CSFR,
CTLA-4, EpCAM, VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3, Notch
4, Jagged 1, Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130,
VCAM-1, CD44, DLL4, or IL4. In a specific embodiment, the AB is
cetuximab, panitumumab, infliximab, adalimumab, efalizumab,
ipilimumab, tremelimumab, adecatumumab, Hu5c8, alemtuzumab,
ranibizumab, tositumomab, ibritumomab tiuxetan, rituximab,
infliximab, bevacizumab, or figitumumab; the CM is a substrate for
legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase,
human neutrophil elastase, beta-secretase, uPA, or PSA.
[0055] Also provided herein is a method of making an activatable
antibody (AA) composition comprising: providing an antibody or
antibody fragment (AB) capable of specifically binding its target;
coupling a masking moiety (MM) to the AB, capable of inhibiting the
specific binding of the AB to its target; and coupling a cleavable
moiety (CM) to the AB, capable of being specifically cleaved by an
enzyme; wherein the dissociation constant (K.sub.d) of the AB
coupled to the MM towards the target is at least 100 times greater
than the K.sub.d of the AB not coupled to the MM towards the
target.
[0056] In one embodiment of the method, the AB is or is derived
from an antibody selected from the group consisting of the
antibodies in Table 2. In a specific embodiment, the AB is or is
derived from cetuximab, panitumumab, infliximab, adalimumab,
efalizumab, ipilimumab, tremelimumab, adecatumumab, Hu5c8,
alemtuzumab, ranibizumab, tositumomab, ibritumomab tiuxetan,
rituximab, infliximab, bevacizumab, or figitumumab.
[0057] In one very specific embodiment, the AB is not alemtuzumab
and the target is not CD52.
[0058] In another embodiment of the method, the CM is a substrate
for an enzyme selected from the group consisting of the enzymes in
Table 3. In a specific embodiment, the CM is a substrate for
legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase,
human neutrophil elastase, beta-secretase, uPA, or PSA.
[0059] Also provided herein is a method of screening candidate
peptides to identify a masking moiety (MM) peptide capable of
binding an antibody or antibody fragment (AB) comprising: providing
a library of peptide scaffolds, wherein each peptide scaffold
comprises: a transmembrane protein (TM); and a candidate peptide;
contacting an AB with the library; identifying at least one
candidate peptide capable of binding the AB; and determining
whether the dissociation constant (K.sub.d) of the candidate
peptide towards the AB is between 1-10 nM.
[0060] In various embodiments of the method, the library comprises
viruses, cells or spores. Specifically in one embodiment, the
library comprises E. coli. In another embodiment, the peptide
scaffold further comprises a detectable moiety.
[0061] Also provided is another screening method to identify a
masking moiety (MM) peptide capable of masking an antibody or
antibody fragment (AB) with an optimal masking efficiency
comprising: providing a library comprising a plurality of ABs, each
coupled to a candidate peptide, wherein the ABs are capable of
specifically binding a target; incubating each library member with
the target; and comparing the binding affinity of each library
member towards the target with the binding affinity of each AB not
coupled to a candidate peptide towards the target. In a specific
embodiment, the optimal binding efficiency is when the binding
affinity of a library member to the target is 10% compared to the
binding affinity of the unmodified AB to the target.
[0062] In one aspect, also provided herein is an antibody
therapeutic having an improved bioavailability wherein the affinity
of binding of the antibody therapeutic to its target is lower in a
first tissue when compared to the binding of the antibody
therapeutic to its target in a second tissue. In a related aspect,
also provided herein is a pharmaceutical composition comprising: an
antibody or antibody fragment (AB), capable of specifically binding
its target; and a pharmaceutically acceptable excipient; wherein
the affinity of the antibody or antibody fragment to the target in
a first tissue is lower than the affinity of the antibody or
antibody fragment to the target in a second tissue. In a specific
embodiment, the affinity in the first tissue is 10-1,000 times
lower than the affinity in the second tissue. In one embodiment,
the AB is coupled to a masking moiety (MM), capable of reducing the
binding of the AB to its target and a cleavable moiety (CM),
capable of specifically being cleaved by an enzyme.
[0063] In related embodiments, the target is EGFR, TNFalpha, CD11a,
CSFR, CTLA-4, EpCAM, VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3,
Notch 4, Jagged 1, Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130,
VCAM-1, CD44, DLL4, or IL4. In related embodiments, the CM is a
substrate for legumain, plasmin, TMPRSS-3/4, MMP-9, MT1-MMP,
cathepsin, caspase, human neutrophil elastase, beta-secretase, uPA,
or PSA. In related embodiments, the antibody or antibody fragment
is cetuximab, panitumumab, infliximab, adalimumab, efalizumab,
ipilimumab, tremelimumab, adecatumumab, Hu5c8, alemtuzumab,
ranibizumab, tositumomab, ibritumomab tiuxetan, rituximab,
infliximab, bevacizumab, or figitumumab.
[0064] In a specific embodiment, the first tissue is a healthy
tissue and the second tissue is a diseased tissue; or the first
tissue is an early stage tumor and the second tissue is a late
stage tumor; the first tissue is a benign tumor and the second
tissue is a malignant tumor; or the first tissue and second tissue
are spatially separated; or the first tissue is epithelial tissue
and the second tissue is breast, head, neck, lung, pancreatic,
nervous system, liver, prostate, urogenital, or cervical
tissue.
[0065] In one embodiment, the antibody therapeutic is further
coupled to an agent. In a specific embodiment, the agent is an
antineoplastic agent.
[0066] Also provided herein are specific compositions for
diagnostic and therapeutic use. Provided herein is a composition
comprising a legumain-activatable antibody or antibody fragment
(AB) coupled to a masking moiety (MM); a composition comprising a
plasmin-activatable antibody or antibody fragment (AB) coupled to a
masking moiety (MM); a composition comprising a caspase-activatable
antibody or antibody fragment (AB) coupled to a masking moiety
(MM); a composition comprising a TMPRSS-3/4-activatable antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising a PSA-activatable antibody or antibody
fragment (AB) coupled to a masking moiety (MM); a composition
comprising a cathepsin-activatable antibody or antibody fragment
(AB) coupled to a masking moiety (MM); a composition comprising a
human neutrophil elastase-activatable antibody or antibody fragment
(AB) coupled to a masking moiety (MM); a composition comprising a
beta-secretase-activatable antibody or antibody fragment (AB)
coupled to a masking moiety (MM); a composition comprising an
uPA-activatable antibody or antibody fragment (AB) coupled to a
masking moiety (MM); a composition comprising a
TMPRSS-3/4-activatable antibody or antibody fragment (AB) coupled
to a masking moiety (MM); a composition comprising a
MT1-MMP-activatable antibody or antibody fragment (AB) coupled to a
masking moiety (MM); a composition comprising an activatable EGFR
antibody or antibody fragment (AB) coupled to a masking moiety
(MM); a composition comprising an activatable TNFalpha antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable CD11a antibody or antibody
fragment (AB) coupled to a masking moiety (MM); a composition
comprising an activatable CSFR antibody or antibody fragment (AB)
coupled to a masking moiety (MM); a composition comprising an
activatable CTLA-4 antibody or antibody fragment (AB) coupled to a
masking moiety (MM); a composition comprising an activatable EpCAM
antibody or antibody fragment (AB) coupled to a masking moiety
(MM); a composition comprising an activatable CD40L antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable Notch1 antibody or antibody
fragment (AB) coupled to a masking moiety (MM); a composition
comprising an activatable Notch3 antibody or antibody fragment (AB)
coupled to a masking moiety (MM); a composition comprising an
activatable Jagged1 antibody or antibody fragment (AB) coupled to a
masking moiety (MM); a composition comprising an activatable
Jagged2 antibody or antibody fragment (AB) coupled to a masking
moiety (MM); a composition comprising an activatable cetuximab
antibody or antibody fragment (AB) coupled to a masking moiety
(MM); a composition comprising an activatable vectibix antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable infliximab antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable adalimumab antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable efalizumab antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable ipilimumab antibody or
antibody fragment (AB) coupled to a masking moiety (MM); a
composition comprising an activatable tremelimumab antibody or
antibody fragment (AB) coupled to a masking moiety (MM); or a
composition comprising an activatable adecatumumab antibody or
antibody fragment (AB) coupled to a masking moiety (MM).
INCORPORATION BY REFERENCE
[0067] All publications, patents, and patent applications mentioned
in this specification are herein incorporated by reference to the
same extent as if each individual publication, patent, or patent
application was specifically and individually indicated to be
incorporated by reference.
BRIEF DESCRIPTION OF THE DRAWINGS
[0068] The novel features of the invention are set forth with
particularity in the appended claims. A better understanding of the
features and advantages of the present invention will be obtained
by reference to the following detailed description that sets forth
illustrative embodiments, in which the principles of the invention
are utilized, and the accompanying drawings of which:
[0069] FIG. 1 shows a protease-activated AA containing an antibody
(an AB), a masking moiety (MM), and a cleavable moiety (CM).
[0070] FIG. 2 shows the activity of an exemplary AA in vivo. Panel
A shows healthy tissue where the AA is not able to bind, side
effects are minimal; Panel B shows diseased tissue where the AA is
activated by a disease-specific protease/reducing agent allowing
the AA to bind to target and be efficacious.
[0071] FIG. 3 illustrates a process to produce a protease-activated
AA, involving: screening for MMs; screening for CMs; assembling the
MM, CM, and an AB; expressing and purifying the assembled
construct; and assaying the assembled construct for activity and
toxicity in vitro and in vivo.
[0072] FIG. 4 provides an exemplary MMP-9 cleavable masked
anti-VEGF scFv amino acid sequence (SEQ ID NO: 350).
[0073] FIG. 5 provides ELISA data showing the MMP-9 activation of
the MBP:anti-VEGFscFv AAs with the MMs 306 and 314. Samples were
treated with TEV to remove the MBP fusion partner and subsequently
activated by MMP-9 digestion.
[0074] FIG. 6 provides ELISA data demonstrating the MMP-9-dependent
VEGF binding of the anti-VEGFscFv His construct with the 306
MM.
[0075] FIG. 7 provides ELISA data demonstrating the MMP-9-dependent
VEGF binding of anti-VEGFscFv-Fc AAs with the MMs 306 and 314 from
HEK cell supernatants.
[0076] FIG. 8 provides ELISA data showing the MMP-9-dependent VEGF
binding of anti-VEGF scFv-Fc AA constructs with the MMs 306 and 314
that were purified using a Protein A column.
[0077] FIG. 9 shows that the 306 MM, which binds to an anti-VEGF
antibody with an affinity of >600 nM, does not efficiently
preclude binding to VEGF.
[0078] FIG. 10 shows light and heavy chains of anti-CTLA4 joined
via SOE-PCR to generate scFv constructs in both orientations,
V.sub.HV.sub.L and V.sub.LV.sub.H. `(GGGS).sub.3` disclosed as SEQ
ID NO: 102, `(GGGS).sub.1/2` disclosed as SEQ ID NO: 351 and
`.sub.1/2(GGGS)` disclosed as SEQ ID NO: 235.
[0079] FIG. 11 shows the use of PCR to add sites for MM cloning, CM
cleavage sequence, (GGS)2 (SEQ ID NO: 111) linker on the N-terminus
of the anti-CTLA4 scFv V.sub.HV.sub.L and V.sub.LV.sub.H
constructs.
[0080] FIG. 12 shows the activation of an AA by MMP-9.
[0081] FIG. 13 shows that when the CM is cleaved to remove the MM,
the binding of the AB is restored.
[0082] FIG. 14 shows the activation of an AA by a protease that
leads to antibody binding indistinguishable from unmodified
antibodies.
[0083] FIG. 15 illustrates that an AA comprising an AB with
specific binding affinity to VEGF is inhibited; the activated AA
binds VEGF with picomolar affinity.
[0084] FIG. 16 depicts that an AA comprising an AB with specific
binding affinity to VEGF inhibits HUVEC proliferation.
[0085] FIG. 17 illustrates that cultured tumor cells demonstrate
robust in situ activation of an AA comprising an AB with specific
binding affinity to VEGF.
[0086] FIG. 18 illustrates that an AA is inactive in normal and
cancer patient plasma
[0087] FIG. 19 illustrates the binding of anti-CTLA4 scFv to both
murine and human CTLA4.
[0088] FIG. 20 shows a protease-activated AACJ-containing an
antibody (containing an AB), a masking moiety (MM), a cleavable
moiety (CM), and a conjugated agent. Upon cleavage of the CM and
unmasking, the conjugated AB is released.
[0089] FIG. 21 shows that binding of the eCPX3.0 clones JS306,
JS1825, JS1827, and JS1829 were analyzed on FACS at 3 different
concentrations of DyLight labeled anti-VEGF. All three of the
affinity matured peptides displayed at least 10 fold higher
affinity than the JS306.
[0090] FIG. 22 shows the process for affinity maturation of some of
the EGFR MM's. Consensus binding motifs disclosed as SEQ ID NOS
264-266, 264 and 236, respectively, in order of appearance, and
C225 binders disclosed as SEQ ID NOS 264-266, 352-355, 236,
356-360, respectively, in order of appearance.
[0091] FIG. 23 shows the binding curves for the on-cell affinity
measurement of C225 Fab binding to MM's 3690, 3954 and 3957. MMs
3954 and 3957 displayed at least 100 fold higher affinity than
3690.
[0092] FIG. 24 displays the Target Displacement Assay and extent of
equilibrium binding as a percent of parental antibody binding.
[0093] FIG. 25 shows that unlike the uPA control and substrate
SM16, KK1203, 1204 and 1214 show resistance to cleavage by KLK5,
KLK7 and Plasmin.
[0094] FIG. 26 shows that unlike a non-optimized substrate, the
optimized substrates Plas1237, Plas129 and Plas 1254 show
resistance to cleavage by KLK5, KLK7.
[0095] FIG. 27 Panel A shows activation of ScFv AAs containing
legumain substrates AANL (SEQ ID NO: 361) and PTNL (SEQ ID NO: 362)
following treatment with 5 mg/mL legumain. Panel B shows activation
of an anti-VEGF IgG AA containing the legumain substrate PTNL (SEQ
ID NO: 362).
[0096] FIG. 28 shows the ratio of activated AA to total AA at each
time point in a legumain-activated AA. While the plasmin-activated
AA is nearly completely activated at 7 days, both
legumain-activatable AAs are only minimally activated.
Legumain-activatable AAs isolated from serum up to 7 days following
injection remain masked. (n=4). `AANL` disclosed as SEQ ID NO: 361
and `PTNL` disclosed as SEQ ID NO: 362.
[0097] FIG. 29 shows that masked single-chain Fv-Fc fusion
pro-antibodies exhibit increased serum half-life.
[0098] FIG. 30 shows that the scFv-Fc serum concentration in
healthy mice over 10 days. The AA concentration remained stable 7
days post dose, whereas the parent scFv-Fc concentration decreased
after 3 days and was almost undetectable at 10 days.
[0099] FIG. 31 shows that AA scFv-Fc concentrations are elevated
and persist longer in serum compared with parent scFv-Fc in
tumor-bearing mice. A higher percentage of the initial AA dose was
detected in the serum at 3 days (B) and 3 and 7 days (A).
[0100] FIG. 32 shows that AA scFv-Fcs persist at higher
concentrations in a multidose study in Tumor-bearing mice. AAs
maintained significantly higher serum concentrations than the
parent throughout the study.
[0101] FIG. 33 shows that AAs persist at high levels in serum of
normal mice as compared to the parental antibody not modified with
a MM.
[0102] FIG. 34 shows protease-activated activatable antibody
complexes (AACs) containing one or more antibodies or fragments
thereof (in this figure the ABs are referred to as ABDs), a masking
moiety (MM), and a cleavable moiety (CM), where ABD1 and ABD2 are
arbitrary designations for first and second ABs. In such
embodiments, the MM1 and MM2 bind the domains containing ABD1 and
ABD2, respectively, and act as masking moieties to interfere with
target binding to an uncleaved dual target-binding AAC. The target
capable of binding the ABs may be the same or different target, or
different binding sites of the same target. In some embodiments
(FIGS. 1A, 1D, 1F), binding of MM1 to the domain containing ABD2 on
the opposite molecule forms the complex capable of acting as a
masking moiety of ABD1 and ABD2.
[0103] FIG. 35 shows an AAC with cross-masking occurring such that
target binding by both ABs is attenuated in the uncleaved state,
and target binding is increased in the presence of an agent that
cleaves the CM allowing the complex to disassemble. In this figure
the AB1 and AB2 are referred to as the ABD1 and ABD2,
respectively.
[0104] FIG. 36 shows an AAC formed by covalent linkage of MM1 with
ABD1 (AB1) such that target binding by ABD2 (AB2) is attenuated in
the uncleaved state, and target binding by ABD2 (AB2) is increased
in the presence of an agent that cleaves the CM allowing the
complex to disassemble. In this figure the AB1 and AB2 are referred
to as the ABD1 and ABD2, respectively.
DETAILED DESCRIPTION OF THE INVENTION
[0105] The present disclosure provides modified antibody
compositions and that are useful for therapeutics and diagnostics.
The compositions described herein allow for greater biodistribution
and improved bioavailability.
[0106] Modified and Activatable Antibodies
[0107] The modified antibody compositions described herein contain
at least an antibody or antibody fragment thereof (collectively
referred to as AB throughout the disclosure), capable of
specifically binding a target, wherein the AB is modified by a
masking moiety (MM).
[0108] When the AB is modified with a MM and is in the presence of
the target, specific binding of the AB to its target is reduced or
inhibited, as compared to the specific binding of the AB not
modified with an MM or the specific binding of the parental AB to
the target.
[0109] The K.sub.d of the AB modified with a MM towards the target
can be at least 5, 10, 25, 50, 100, 250, 500, 1,000, 2,500, 5,000,
10,000, 50,000, 100,000, 500,000, 1,000,000, 5,000,000, 10,000,000,
50,000,000 or greater, or between 5-10, 10-100, 10-1,000,
10-10,000, 10-100,000, 10-1,000,000, 10-10,000,000, 100-1,000,
100-10,000, 100-100,000, 100-1,000,000, 100-10,000,000,
1,000-10,000, 1,000-100,000, 1,000-1,000,000, 1000-10,000,000,
10,000-100,000, 10,000-1,000,000, 10,000-10,000,000,
100,000-1,000,000, or 100,000-10,000,000 times greater than the
K.sub.d of the AB not modified with an MM or the parental AB
towards the target. Conversely, the binding affinity of the AB
modified with a MM towards the target can be at least 5, 10, 25,
50, 100, 250, 500, 1,000, 2,500, 5,000, 10,000, 50,000, 100,000,
500,000, 1,000,000, 5,000,000, 10,000,000, 50,000,000 or greater,
or between 5-10, 10-100, 10-1,000, 10-10,000, 10-100,000,
10-1,000,000, 10-10,000,000, 100-1,000, 100-10,000, 100-100,000,
100-1,000,000, 100-10,000,000, 1,000-10,000, 1,000-100,000,
1,000-1,000,000, 1000-10,000,000, 10,000-100,000, 10,000-1,000,000,
10,000-10,000,000, 100,000-1,000,000, or 100,000-10,000,000 times
lower than the binding affinity of the AB not modified with an MM
or the parental AB towards the target.
[0110] The dissociation constant (K.sub.d) of the MM towards the AB
is generally greater than the K.sub.d of the AB towards the target.
The K.sub.d of the MM towards the AB can be at least 5, 10, 25, 50,
100, 250, 500, 1,000, 2,500, 5,000, 10,000, 100,000, 1,000,000 or
even 10,000,000 times greater than the K.sub.d of the AB towards
the target. Conversely, the binding affinity of the MM towards the
AB is generally lower than the binding affinity of the AB towards
the target. The binding affinity of MM towards the AB can be at
least 5, 10, 25, 50, 100, 250, 500, 1,000, 2,500, 5,000, 10,000,
100,000, 1,000,000 or even 10,000,000 times lower than the binding
affinity of the AB towards the target.
[0111] When the AB is modified with a MM and is in the presence of
the target, specific binding of the AB to its target can be reduced
or inhibited, as compared to the specific binding of the AB not
modified with an MM or the specific binding of the parental AB to
the target. When compared to the binding of the AB not modified
with an MM or the binding of the parental AB to the target, the
AB's ability to bind the target when modified with an MM can be
reduced by at least 50%, 60%, 70%, 80%, 90%, 92%, 93%, 94%, 95%,
96%, 97%, 98%, 99% and even 100% for at least 2, 4, 6, 8, 12, 28,
24, 30, 36, 48, 60, 72, 84, 96, hours, or 5, 10, 15, 30, 45, 60,
90, 120, 150, 180 days, or 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12
months or greater when measured in vivo or in a Target Displacement
in vitro immunoabsorbant assay, as described herein.
[0112] The MM can inhibit the binding of the AB to the target. The
MM can bind the antigen binding domain of the AB and inhibit
binding of the AB to its target. The MM can sterically inhibit the
binding of the AB to the target. The MM can allosterically inhibit
the binding of the AB to its target. In these embodiments when the
AB is modified or coupled to a MM and in the presence of target,
there is no binding or substantially no binding of the AB to the
target, or no more than 0.001%, 0.01%, 0.1%, 1%, 2%, 3%, 4%, 5%,
6%, 7%, 8%, 9%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, or 50% binding
of the AB to the target, as compared to the binding of the AB not
modified with an MM, the parental AB, or the AB not coupled to an
MM to the target, for at least 2, 4, 6, 8, 12, 28, 24, 30, 36, 48,
60, 72, 84, 96, hours, or 5, 10, 15, 30, 45, 60, 90, 120, 150, 180
days, or 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12 months or greater
when measured in vivo or in a Target Displacement in vitro
immunoabsorbant assay, as described herein.
[0113] When an AB is coupled to or modified by a MM, the MM can
`mask` or reduce, or inhibit the specific binding of the AB to its
target. When an AB is coupled to or modified by a MM, such coupling
or modification can effect a structural change which reduces or
inhibits the ability of the AB to specifically bind its target.
[0114] An AB coupled to or modified with an MM can be represented
by the following formulae (in order from an amino (N) terminal
region to carboxyl (C) terminal region:
TABLE-US-00001 (MM)-(AB) (AB)-(MM) (MM)-L-(AB) (AB)-L-(MM)
where MM is a masking moiety, the AB is an antibody or antibody
fragment thereof, and the L is a linker. In many embodiments it may
be desirable to insert one or more linkers, e.g., flexible linkers,
into the composition so as to provide for flexibility.
[0115] In certain embodiments the MM is not a natural binding
partner of the AB. The MM may be a modified binding partner for the
AB which contains amino acid changes that at least slightly
decrease affinity and/or avidity of binding to the AB. In some
embodiments the MM contains no or substantially no homology to the
AB's natural binding partner. In other embodiments the MM is no
more than 5%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, 45%, 50%, 55%,
60%, 65%, 70%, 75%, or 80% similar to the natural binding partner
of the AB.
[0116] The present disclosure also provides activatable antibodies
(AAs) where the AB modified by an MM can further include one or
more cleavable moieties (CM). Such AAs exhibit
activatable/switchable binding, to the AB's target. AAs generally
include an antibody or antibody fragment (AB), modified by or
coupled to a masking moiety (MM) and a modifiable or cleavable
moiety (CM). In some embodiments, the CM contains an amino acid
sequence that serves as a substrate for a protease of interest. In
other embodiments, the CM provides a cysteine-cysteine disulfide
bond that is cleavable by reduction. In yet other embodiments the
CM provides a photolytic substrate that is activatable by
photolysis.
[0117] A schematic of an exemplary AA is provided in FIG. 1. As
illustrated, the elements of the AA are arranged so that the CM is
positioned such that in a cleaved (or relatively active state) and
in the presence of a target, the AB binds a target, while in an
uncleaved (or relatively inactive state) in the presence of the
target, specific binding of the AB to its target is reduced or
inhibited. The specific binding of the AB to its target can be
reduced due to the due to the inhibition or masking of the AB's
ability to specifically bind its target by the MM.
[0118] The K.sub.d of the AB modified with a MM and a CM towards
the target can be at least 5, 10, 25, 50, 100, 250, 500, 1,000,
2,500, 5,000, 10,000, 50,000, 100,000, 500,000, 1,000,000,
5,000,000, 10,000,000, 50,000,000 or greater, or between 5-10,
10-100, 10-1,000, 10-10,000, 10-100,000, 10-1,000,000,
10-10,000,000, 100-1,000, 100-10,000, 100-100,000, 100-1,000,000,
100-10,000,000, 1,000-10,000, 1,000-100,000, 1,000-1,000,000,
1000-10,000,000, 10,000-100,000, 10,000-1,000,000,
10,000-10,000,000, 100,000-1,000,000, or 100,000-10,000,000 times
greater than the K.sub.d of the AB not modified with an MM and a CM
or the parental AB towards the target. Conversely, the binding
affinity of the AB modified with a MM and a CM towards the target
can be at least 5, 10, 25, 50, 100, 250, 500, 1,000, 2,500, 5,000,
10,000, 50,000, 100,000, 500,000, 1,000,000, 5,000,000, 10,000,000,
50,000,000 or greater, or between 5-10, 10-100, 10-1,000,
10-10,000, 10-100,000, 10-1,000,000, 10-10,000,000, 100-1,000,
100-10,000, 100-100,000, 100-1,000,000, 100-10,000,000,
1,000-10,000, 1,000-100,000, 1,000-1,000,000, 1000-10,000,000,
10,000-100,000, 10,000-1,000,000, 10,000-10,000,000,
100,000-1,000,000, or 100,000-10,000,000 times lower than the
binding affinity of the AB not modified with an MM and a CM or the
parental AB towards the target.
[0119] When the AB is modified with a MM and a CM and is in the
presence of the target but not in the presence of a modifying agent
(for example an enzyme, protease, reduction agent, light), specific
binding of the AB to its target can be reduced or inhibited, as
compared to the specific binding of the AB not modified with an MM
and a CM or the parental AB to the target. When compared to the
binding of the parental AB or the binding of an AB not modified
with an MM and a CM to its target, the AB's ability to bind the
target when modified with an MM and a CM can be reduced by at least
50%, 60%, 70%, 80%, 90%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% and
even 100% for at least 2, 4, 6, 8, 12, 28, 24, 30, 36, 48, 60, 72,
84, 96 hours, or 5, 10, 15, 30, 45, 60, 90, 120, 150, 180 days, or
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12 months or greater when
measured in vivo or in a Target Displacement in vitro
immunoabsorbant assay, as described herein.
[0120] As used herein, the term cleaved state refers to the
condition of the AA following modification of the CM by a protease
and/or reduction of a cysteine-cysteine disulfide, bond of the CM,
and/or photoactivation. The term uncleaved state, as used herein,
refers to the condition of the AA in the absence of cleavage of the
CM by a protease and/or in the absence reduction of a
cysteine-cysteine disulfide bond of the CM, and/or in the absence
of light. As discussed above, the term AA is used herein to refer
to an AA in both its uncleaved (native) state, as well as in its
cleaved state. It will be apparent to the ordinarily skilled
artisan that in some embodiments a cleaved AA may lack an MM due to
cleavage of the CM by protease, resulting in release of at least
the MM (e.g., where the MM is not joined to the AA by a covalent
bond (e.g., a disulfide bond between cysteine residues).
[0121] By activatable or switchable is meant that the AA exhibits a
first level of binding to a target when in a inhibited, masked or
uncleaved state (i.e., a first conformation), and a second level of
binding to the target in the uninhibited, unmasked and/or cleaved
state (i.e., a second conformation), where the second level of
target binding is greater than the first level of binding. In
general, the access of target to the AB of the AA is greater in the
presence of a cleaving agent capable of cleaving the CM than in the
absence of such a cleaving agent. Thus, when the AA is in the
uncleaved state, the AB is inhibited from target binding and can be
masked from target binding (i.e., the first conformation is such
the AB can not bind the target), and in the cleaved state the AB is
not inhibited or is unmasked to target binding.
[0122] The CM and AB of the AA may be selected so that the AB
represents a binding moiety for a target of interest, and the CM
represents a substrate for a protease that is co-localized with the
target at a treatment site in a subject. Alternatively or in
addition, the CM is a cysteine-cysteine disulfide bond that is
cleavable as a result of reduction of this disulfide bond. AAs
contain at least one of a protease-cleavable CM or a
cysteine-cysteine disulfide bond, and in some embodiments include
both kinds of CMs. The AAs can alternatively or further include a
photolabile substrate, activatable by a light source. The AAs
disclosed herein find particular use where, for example, a protease
capable of cleaving a site in the CM is present at relatively
higher levels in target-containing tissue of a treatment site (for
example diseased tissue; for example for therapeutic treatment or
diagnostic treatment) than in tissue of non-treatment sites (for
example in healthy tissue), as exemplified in FIG. 2. The AAs
disclosed herein also find particular use where, for example, a
reducing agent capable of reducing a site in the CM is present at
relatively higher levels in target-containing tissue of a treatment
or diagnostic site than in tissue of non-treatment non-diagnostic
sites. The AAs disclosed herein also find particular use where, for
example, a light source, for example, by way of laser, capable of
photolysing a site in the CM is introduced to a target-containing
tissue of a treatment or diagnostic site.
[0123] In some embodiments AAs can provide for reduced toxicity
and/or adverse side effects that could otherwise result from
binding of the AB at non-treatment sites if the AB were not masked
or otherwise inhibited from binding its target. Where the AA
contains a CM that is cleavable by a reducing agent that
facilitates reduction of a disulfide bond, the ABs of such AAs may
selected to exploit activation of an AB where a target of interest
is present at a desired treatment site characterized by elevated
levels of a reducing agent, such that the environment is of a
higher reduction potential than, for example, an environment of a
non-treatment site.
[0124] In general, an AA can be designed by selecting an AB of
interest and constructing the remainder of the AA so that, when
conformationally constrained, the MM provides for masking of the AB
or reduction of binding of the AB to its target. Structural design
criteria to be taken into account to provide for this functional
feature.
[0125] In certain embodiments dual-target binding AAs are provided
in the present disclosure. Such dual target binding AAs contain two
ABs, which may bind the same or different target. In specific
embodiments, dual-targeting AAs contain bispecific antibodies or
antibody fragments. In one specific exemplary embodiment, the AA
contains an IL17 AB and an IL23 AB. In other specific embodiments
the AA contains a IL12 AB and a IL23 AB, or a EGFR AB and a VEGF
AB, or a IGF1R AB and EGFR AB, or a cMET AB and IGF1R AB, or a EGFR
AB and a VEGF AB, or a Notch Receptor AB and a EGFR AB, or a Jagged
ligand AB and a EGFR AB, or a cMET AB and a VEGF AB.
[0126] Dual target binding AAs can be designed so as to have a CM
cleavable by a cleaving agent that is co-localized in a target
tissue with one or both of the targets capable of binding to the
ABs of the AA. Dual target binding AAs with more than one AB to the
same or different targets can be designed so as to have more than
one CM, wherein the first CM is cleavable by a cleaving agent in a
first target tissue and wherein the second CM is cleavable by a
cleaving agent in a second target tissue, with one or more of the
targets capable of binding to the ABs of the AA. The first and
second target tissues can be spatially separated, for example, at
different sites in the organism. The first and second target
tissues can be the same tissue temporally separated, for example
the same tissue at two different points in time, for example the
first time point can be when the tissue is a healthy tumor, and the
second time point can be when the tissue is a necrosed tumor.
[0127] AAs exhibiting a switchable phenotype of a desired dynamic
range for target binding in an inhibited versus an uninhibited
conformation are provided. Dynamic range generally refers to a
ratio of (a) a maximum detected level of a parameter under a first
set of conditions to (b) a minimum detected value of that parameter
under a second set of conditions. For example, in the context of an
AA, the dynamic range refers to the ratio of (a) a maximum detected
level of target protein binding to an AA in the presence of
protease capable of cleaving the CM of the AA to (b) a minimum
detected level of target protein binding to an AA in the absence of
the protease. The dynamic range of an AA can be calculated as the
ratio of the equilibrium dissociation constant of an AA cleaving
agent (e.g., enzyme) treatment to the equilibrium dissociation
constant of the AA cleaving agent treatment. The greater the
dynamic range of an AA, the better the switchable phenotype of the
AA. AAs having relatively higher dynamic range values (e.g.,
greater than 1) exhibit more desirable switching phenotypes such
that target protein binding by the AA occurs to a greater extent
(e.g., predominantly occurs) in the presence of a cleaving agent
(e.g., enzyme) capable of cleaving the CM of the AA than in the
absence of a cleaving agent.
[0128] AAs can be provided in a variety of structural
configurations. Exemplary formulae for AAs are provided below. It
is specifically contemplated that the N- to C-terminal order of the
AB, MM and CM may be reversed within an AA. It is also specifically
contemplated that the CM and MM may overlap in amino acid sequence,
e.g., such that the CM is contained within the MM.
[0129] For example, AAs can be represented by the following formula
(In order from an amino (N) terminal region to carboxyl (C)
terminal region:
TABLE-US-00002 (MM)-(CM)-(AB) (AB)-(CM)-(MM)
where MM is a masking moiety, CM is a cleavable moiety, and AB is
an antibody or fragment thereof. It should be noted that although
MM and CM are indicated as distinct components in the formula
above, in all exemplary embodiments (including formulae) disclosed
herein it is contemplated that the amino acid sequences of the MM
and the CM could overlap, e.g., such that the CM is completely or
partially contained within the MM. In addition, the formulae above
provide for additional amino acid sequences that may be positioned
N-terminal or C-terminal to the AA elements.
[0130] In many embodiments it may be desirable to insert one or
more linkers, e.g., flexible linkers, into the AA construct so as
to provide for flexibility at one or more of the MM-CM junction,
the CM-AB junction, or both. For example, the AB, MM, and/or CM may
not contain a sufficient number of residues (e.g., Gly, Ser, Asp,
Asn, especially Gly and Ser, particularly Gly) to provide the
desired flexibility. As such, the switchable phenotype of such AA
constructs may benefit from introduction of one or more amino acids
to provide for a flexible linker. In addition, as described below,
where the AA is provided as a conformationally constrained
construct, a flexible linker can be operably inserted to facilitate
formation and maintenance of a cyclic structure in the uncleaved
AA.
[0131] For example, in certain embodiments an AA comprises one of
the following formulae (where the formula below represent an amino
acid sequence in either N- to C-terminal direction or C- to
N-terminal direction):
TABLE-US-00003 (MM)-L.sub.1-(CM)-(AB) (MM)-(CM)-L.sub.1-(AB)
(MM)-L.sub.1-(CM)-L.sub.2-(AB)
cyclo[L.sub.1-(MM)-L.sub.2-(CM)-L.sub.3-(AB)]
wherein MM, CM, and AB are as defined above; wherein L.sub.1,
L.sub.2, and L.sub.3 are each independently and optionally present
or absent, are the same or different flexible linkers that include
at least 1 flexible amino acid (e.g., Gly); and wherein cyclo where
present, the AA is in the form of a cyclic structure due to the
presence of a disulfide bond between a pair of cysteines in the AA.
In addition, the formulae above provide for additional amino acid
sequences that may be positioned N-terminal or C-terminal to the AA
elements. It should be understood that in the formula
cyclo[L.sub.1-(MM)-L.sub.2-(CM)-L.sub.3-(AB)], the cysteines
responsible for the disulfide bond may be positioned in the AA to
allow for one or two tails, thereby generating a lasso or omega
structure when the AA is in a disulfide-bonded structure (and thus
conformationally constrained state). The amino acid sequence of the
tail(s) can provide for additional AA features, such as binding to
a target receptor to facilitate localization of the AA, increasing
serum half-life of the AA, and the like. Targeting moieties (e.g.,
a ligand for a receptor of a cell present in a target tissue) and
serum half-life extending moieties (e.g., polypeptides that bind
serum proteins, such as immunoglobulin (e.g., IgG) or serum albumin
(e.g., human serum albumin (HSA).
[0132] Elements of Modified and Activatable Antibodies
[0133] (a) Antibodies or Antibody Fragments (Collectively Referred
to as ABs)
[0134] According to the present invention, ABs directed against any
antigen or hapten may be used. ABs used in the present invention
may be directed against any determinant, e.g., tumor, bacterial,
fungal, viral, parasitic, mycoplasmal, histocompatibility,
differentiation and other cell membrane antigens, pathogen surface
antigens, toxins, enzymes, allergens, drugs, intracellular targets,
and any biologically active molecules. Additionally, a combination
of ABs reactive to different antigenic determinants may be
used.
[0135] As used herein, the AB is a full length antibody or an
antibody fragment containing an antigen binding domain, which is
capable of binding, especially specific binding, to a target of
interest, usually a protein target of interest. A schematic of an
AA is provided in FIG. 1. In such embodiments, the AB can be but is
not limited to variable or hypervariable regions of light and/or
heavy chains of an antibody (V.sub.L, V.sub.H), variable fragments
(Fv), Fab' fragments, F(ab') 2 fragments, Fab fragments, single
chain antibodies (scAb), single chain variable regions (scFv),
complementarity determining regions (CDR), domain antibodies
(dAbs), single domain heavy chain immunoglobulins of the BHH or
BNAR type, single domain light chain immunoglobulins, or other
polypeptides known in the art containing an AB capable of binding
target proteins or epitopes on target proteins. In further
embodiments, the AB may be a chimera or hybrid combination
containing more than on AB, for example a first AB and a second AB
such that each AB is capable of binding to the same or different
target. In some embodiments, the AB is a bispecific antibody or
fragment thereof, designed to bind two different antigens. In some
embodiments there is a first MM and CM and/or a second MM and CM
coupled to the first AB and the second AB, respectively, in the
activatable form.
[0136] The origin of the AB can be a naturally occurring antibody
or fragment thereof, a non-naturally occurring antibody or fragment
thereof, a synthetic antibody or fragment thereof, a hybrid
antibody or fragment thereof, or an engineered antibody or fragment
thereof. The antibody can be a humanized antibody or fragment
thereof.
[0137] In certain embodiments, more than one AB is contained in the
AA. In some embodiments the ABs can be derived from bispecific
antibodies or fragments thereof. In other embodiments the AA can be
synthetically engineered so as to incorporate ABs derived from two
different antibodies or fragments thereof. In such embodiments, the
ABs can be designed to bind two different targets, two different
antigens, or two different epitopes on the same target. An AB
containing a plurality of ABs capable of binding more than one
target site are usually designed to bind to different binding sites
on a target or targets of interest such that binding of a first AB
of the AA does not substantially interfere with binding of a second
AB of the AA to a target. AAs containing multiple ABs can further
include multiple AB-MM units, which may optionally be separated by
additional CMs so that upon exposure to a modifying agent, the ABs
are no longer inhibited from specifically binding their targets, or
are `unmasked`.
[0138] In some embodiments, use of antibody fragments as sources
for the AB allow permeation of target sites at an increased rate.
The Fab' fragments of IgG immunoglobulins are obtained by cleaving
the antibody with pepsin [resulting in a bivalent fragment, (Fab')
2] or with papain [resulting in 2 univalent fragments, (2 Fab)].
Parham, 1983, J. Immunol. 131: 2895-2902; Lamoyi and Nisonoff,
1983, J. Immunol. Meth. 56: 235-243. The bivalent (Fab') 2 fragment
can be split by mild reduction of one or a few disulfide bonds to
yield univalent Fab' fragments. The Fab and (Fab') 2 fragments are
smaller than a whole antibody, still containing an AB and,
therefore can permeate the target site or tissue more easily when
used as the AB. This may offer an advantage for in vivo delivery in
certain embodiments because many such fragments do not cross a
placental barrier. As a result, using this embodiment of the
present invention, an AA may be delivered at an in vivo site (such
as a tumor) to a pregnant female without exposing the fetus.
[0139] Methods for generating an antibody (or fragment thereof) for
a given target are well known in the art. The structure of
antibodies and fragments thereof, variable regions of heavy and
light chains of an antibody (V.sub.H and V.sub.L), Fv, F(ab')2, Fab
fragments, single chain antibodies (scAb), single chain variable
regions (scFv), complementarity determining regions (CDR), and
domain antibodies (dAbs) are well understood. Methods for
generating a polypeptide having a desired antigen-binding domain of
a target antigen are known in the art.
[0140] Methods for modifying antibodies or antibody fragments to
couple additional polypeptides are also well-known in the art. For
instance, peptides such as MMs, CMs or linkers may be coupled to
modify antibodies to generate the modified ABs and AAs of the
disclosure. AAs that contain protease-activated ABs can be
developed and produced with standard methods, as described in the
schematic in FIG. 3.
[0141] The antibody or fragment thereof (collectively referred to
as AB) is capable of specifically binding a protein target. An AB
of the invention can specifically bind to its target with a
dissociation constant (K.sub.d) of no more than 1000 nM, 100 nM, 50
nM, 10 nM, 5 nM, 1 nM, 500 pM, 400 pM, 350 pM, 300 pM, 250 pM, 200
pM, 150 pM, 100 pM, 50 pM, 25 pM, 10 pM, 5 pM, 1 pM, 0.5 pM, or 0.1
pM.
[0142] Exemplary classes of targets of an AB include, but are not
necessarily limited to, cell surface receptors and secreted binding
proteins (e.g., growth factors), soluble enzymes, structural
proteins (e.g. collagen, fibronectin) and the like. In some
embodiments, AAs contemplated by the present disclosure are those
having an AB capable of binding an extracellular target, usually an
extracellular protein target. In other embodiments AAs can be
designed such that they are capable of cellular uptake and are
designed to be switchable inside a cell.
[0143] In exemplary embodiments, in no way limiting, the AB is a
binding partner for any target listed in Table 1. In specific
exemplary embodiments, the AB is a binding partner for EGFR,
TNFalpha, CD11a, CSFR, CTLA-4, EpCAM, VEGF, CD40, CD20, Notch 1,
Notch 2, Notch 3, Notch 4, Jagged 1, Jagged 2, CD52, MUC1, IGF1R,
transferrin, gp130, VCAM-1, CD44, DLL4, or IL4. In one specific
embodiment the AB is not a binding partner for CD52.
[0144] In exemplary embodiments, in no way limiting, exemplary
sources for ABs are listed in Table 2. In specific exemplary
embodiments, the source for an AB of the invention is cetuximab,
panitumumab, infliximab, adalimumab, efalizumab, ipilimumab,
tremelimumab, adecatumumab, Hu5c8, alemtuzumab, ranibizumab,
tositumomab, ibritumomab tiuxetan, rituximab, infliximab,
bevacizumab, or figitumumab. In one specific embodiment, the source
for the AB is not alemtuzumab or is not Campath.TM..
TABLE-US-00004 TABLE 1 Exemplary Targets 1-92-LFA-3 cMet HGF IL4
PSMA Anti-Lewis-Y Collagen hGH IL4R RAAG12 Apelin J receptor CSFR
Hyaluronidase IL6 Sphingosine 1 Phosphate C5 complement CSFR-1
IFNalpha Insulin Receptor TGFbeta CD11a CTLA-4 IFNbeta Jagged
Ligands TNFalpha CD172A CXCR4 IFNgamma Jagged 1 TNFalpha CD19 DL44
IgE Jagged 2 TNFR CD20 DLL4 IgE Receptor MUC1 TRAIL-R1 CD22 EGFR
IGF Na/K ATPase TRAIL-R2 CD25 EpCAM IGF1R NGF Transferrin CD28
EPHA2 IL11 Notch Receptors Transferrin receptor CD3 ERBB3 IL12
Notch 1 TRK-A CD30 F protein of RSV IL13 Notch 2 TRK-B CD33 FAP
IL15 Notch 3 VCAM-1 CD40 FGF-2 IL17 Notch 4 VEGF CD40L FGFR1 IL18
PDGF-AA VEGF-A CD41 FGFR2 IL1B PDGF-BB VEGF-B CD44 FGFR3 IL1R
PDGFRalpha VEGF-C CD52 FGFR4 IL2 PDGFRalpha VEGF-D CD64 Folate
receptor IL21 PDGFRbeta VEGFR1 CD80 GP IIb/IIIa IL23 PDGFRbeta
VEGFR2 receptors CD86 Gp130 IL23R Phosphatidylserine VEGFR3
CLAUDIN-3 GPIIB/IIIA IL29 PlGF alpha4beta1 integrin CLAUDIN-4
HER2/neu IL2R PSCA alpha4beta7 integrin
TABLE-US-00005 TABLE 2 Exemplary sources for ABs Antibody Trade
Name (antibody name) Target Avastin .TM. (bevacizumab) VEGF
Lucentis .TM. (ranibizumab) VEGF Erbitux .TM. (cetuximab) EGFR
Vectibix .TM. (panitumumab) EGFR Remicade .TM. (infliximab)
TNF.alpha. Humira .TM. (adalimumab) TNF.alpha. Tysabri .TM.
(natalizumab) Integrin.alpha.4 Simulect .TM. (basiliximab) IL2R
Soliris .TM. (eculizumab) Complement C5 Raptiva .TM. (efalizumab)
CD11a Bexxar .TM. (tositumomab) CD20 Zevalin .TM. (ibritumomab
tiuxetan) CD20 Rituxan .TM. (rituximab) CD20 Zenapax .TM.
(daclizumab) CD25 Myelotarg .TM. (gemtuzumab) CD33 Mylotarg .TM.
(gemtuzumab ozogamicin) CD33 Campath .TM. (alemtuzumab) CD52 ReoPro
.TM. (abiciximab) Glycoprotein receptor IIb/IIIa Xolair .TM.
(omalizumab) IgE Herceptin .TM. (trastuzumab) Her2 Synagis .TM.
(palivizumab) F protein of RSV (ipilimumab) CTLA-4 (tremelimumab)
CTLA-4 Hu5c8 CD40L (pertuzumab) Her2-neu (ertumaxomab) CD3/Her2-neu
Orencia .TM. (abatacept) CTLA-4 (tanezumab) NGF (bavituximab)
Phosphatidylserine (zalutumumab) EGFR (mapatumumab) EGFR
(matuzumab) EGFR (nimotuzumab) EGFR ICR62 EGFR mAb 528 EGFR CH806
EGFR MDX-447 EGFR/CD64 (edrecolomab) EpCAM RAV12 RAAG12 huJ59l PSMA
Enbrel .TM. (etanercept) TNF-R Amevive .TM. (alefacept) 1-92-LFA-3
Antril .TM., Kineret .TM.(ankinra) IL-1Ra GC1008 TGFbeta Notch 1
Jagged 1 (adecatumumab) EpCAM (figitumumab) IGF1R (tocilizumab)
IL-6
[0145] The exemplary sources for some of the ABs listed in Table 2
are detailed in the following references which are incorporated by
reference herein for their description of one or more of the
referenced AB sources: Remicade.TM. (infliximab): U.S. Pat. No.
6,015,557, Nagahira K, Fukuda Y, Oyama Y, Kurihara T, Nasu T,
Kawashima H, Noguchi C, Oikawa S, Nakanishi T. Humanization of a
mouse neutralizing monoclonal antibody against tumor necrosis
factor-alpha (TNF-alpha). J Immunol Methods. 1999 Jan. 1;
222(1-2):83-92.) Knight D M, Trinh H, Le J, Siegel S, Shealy D,
McDonough M, Scallon B, Moore M A, Vilcek J, Daddona P, et al.
Construction and initial characterization of a mouse-human chimeric
anti-TNF antibody. Mol Immunol. 1993 November; 30(16):1443-53.
Humira.TM. (adalimumab): Sequence in U.S. Pat. No. 6,258,562.
Raptiva.TM. (efalizumab): Sequence listed in Werther W A, Gonzalez
T N, O'Connor S J, McCabe S, Chan B, Hotaling T, Champe M, Fox J A,
Jardieu P M, Berman P W, Presta L G. Humanization of an
anti-lymphocyte function-associated antigen (LFA)-1 monoclonal
antibody and reengineering of the humanized antibody for binding to
rhesus LFA-1. J Immunol. 1996 Dec. 1; 157(11):4986-95. Mylotarg.TM.
(gemtuzumab ozogamicin): (Sequence listed in CO MS, Avdalovic N M,
Caron P C, Avdalovic M V, Scheinberg D A, Queen C: Chimeric and
humanized antibodies with specificity for the CD33 antigen. J
Immunol 148:1149, 1991) (Caron P C, Schwartz M A, Co M S, Queen C,
Finn R D, Graham M C, Divgi C R, Larson S M, Scheinberg D A. Murine
and humanized constructs of monoclonal antibody M195 (anti-CD33)
for the therapy of acute myelogenous leukemia. Cancer. 1994 Feb. 1;
73(3 Suppl):1049-56). Soliris.TM. (eculizumab):_Hillmen P, Young N,
Schubert J, Brodsky R, Socie G, Muus P, Roth A, Szer J, Elebute M,
Nakamura R, Browne P, Risitano A, Hill A, Schrezenmeier H, Fu C,
Maciejewski J, Rollins S, Mojcik C, Rother R, Luzzatto L (2006).
The complement inhibitor eculizumab in paroxysmal nocturnal
hemoglobinuria. N Engl J Med 355 (12): 1233-43. Tysabri.TM.
(natalizumab): Sequence listed in Leger O J, Yednock T A, Tanner L,
Horner H C, Hines D K, Keen S, Saldanha J, Jones S T, Fritz L C,
Bendig M M. Humanization of a mouse antibody against human alpha-4
integrin: a potential therapeutic for the treatment of multiple
sclerosis. Hum Antibodies. 1997; 8(1):3-16. Synagis.TM.
(palivizumab): Sequence listed in Johnson S, Oliver C, Prince G A,
Hemming V G, Pfarr D S, Wang S C, Dormitzer M, O'Grady J, Koenig S,
Tamura J K, Woods R, Bansal G, Couchenour D, Tsao E, Hall W C,
Young J F. Development of a humanized monoclonal antibody
(MEDI-493) with potent in vitro and in vivo activity against
respiratory syncytial virus. J Infect Dis. 1997 November;
176(5):1215-24. Ipilimumab: J. Immunother: 2007; 30(8): 825-830
Ipilimumab (Anti-CTLA4 Antibody) Causes Regression of Metastatic
Renal Cell Cancer Associated With Enteritis and Hypophysitis; James
C. Yang, Marybeth Hughes, Udai Kammula, Richard Royal, Richard M.
Sherry, Suzanne L. Topalian, Kimberly B. Suri, Catherine Levy,
Tamika Allen, Sharon Mavroukakis, Israel Lowy, Donald E. White, and
Steven A. Rosenberg. Tremelimumab: Oncologist 2007; 12; 153-883;
Blocking Monoclonal Antibody in Clinical Development for Patients
with Cancer; Antoni Ribas, Douglas C. Hanson, Dennis A. Noe, Robert
Millham, Deborah J. Guyot, Steven H. Bernstein, Paul C. Canniff,
Amarnath Sharma and Jesus Gomez-Navarro.
[0146] (b) Masking Moiety (MM)
[0147] The masking moiety (MM) of the present disclosure generally
refers to an amino acid sequence coupled to the AB and positioned
such that it reduces the AB's ability to specifically bind its
target. In some cases the MM is coupled to the AB by way of a
linker.
[0148] When the AB is modified with a MM and is in the presence of
the target, specific binding of the AB to its target is reduced or
inhibited, as compared to the specific binding of the AB not
modified with an MM or the specific binding of the parental AB to
the target.
[0149] The K.sub.d of the AB modified with a MM towards the AB's
target is generally greater than the K.sub.d of the AB not modified
with a MM or the K.sub.d of parental AB towards the target.
Conversely, the binding affinity of the AB modified with a MM
towards the target is generally lower than the binding affinity of
the AB not modified with a MM or the parental AB towards the
target.
[0150] The dissociation constant (K.sub.d) of the MM towards the AB
is generally greater than the K.sub.d of the AB towards the target.
Conversely, the binding affinity of the MM towards the AB is
generally lower than the binding affinity of the AB towards the
target.
[0151] When the AB is modified with a MM and is in the presence of
the target, specific binding of the AB to its target can be reduced
or inhibited, as compared to the specific binding of the AB not
modified with an MM or the specific binding of the parental AB to
the target. When the AB is modified with a CM and a MM and is in
the presence of the target but not sufficient enzyme or enzyme
activity to cleave the CM, specific binding of the modified AB to
the target is reduced or inhibited, as compared to the specific
binding of the AB modified with a CM and a MM in the presence of
the target and sufficient enzyme or enzyme activity to cleave the
CM.
[0152] The MM can inhibit the binding of the AB to the target. The
MM can bind the antigen binding domain of the AB and inhibit
binding of the AB to its target. The MM can sterically inhibit the
binding of the AB to the target. The MM can allosterically inhibit
the binding of the AB to its target. In these embodiments when the
AB is modified or coupled to a MM and in the presence of target,
there is no binding or substantially no binding of the AB to the
target, or no more than 0.001%, 0.01%, 0.1%, 1%, 2%, 3%, 4%, 5%,
6%, 7%, 8%, 9%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, or 50% binding
of the AB to the target, as compared to the binding of the AB not
modified with an MM, the binding of the parental AB, or the binding
of the AB not coupled to an MM to the target, for at least 2, 4, 6,
8, 12, 28, 24, 30, 36, 48, 60, 72, 84, 96 hours, or 5, 10, 15, 30,
45, 60, 90, 120, 150, 180 days, or 1, 2, 3, 4, 5, 6, 7, 8, 9, 10,
11, 12 months or greater when measured in vivo or in a Target
Displacement in vitro immunoabsorbant assay, as described
herein.
[0153] In certain embodiments the MM is not a natural binding
partner of the AB. The MM may be a modified binding partner for the
AB which contains amino acid changes that at least slightly
decrease affinity and/or avidity of binding to the AB. In some
embodiments the MM contains no or substantially no homology to the
AB's natural binding partner. In other embodiments the MM is no
more than 5%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, 45%, 50%, 55%,
60%, 65%, 70%, 75%, or 80% similar to the natural binding partner
of the AB.
[0154] When the AB is in a `masked` state, even in the presence of
a target for the AB, the MM interferes with or inhibits the binding
of the AB to the target. However, in the unmasked state of the AB,
the MM's interference with target binding to the AB is reduced,
thereby allowing greater access of the AB to the target and
providing for target binding.
[0155] For example, when the modified antibody is an AA and
comprises a CM, the AB can be unmasked upon cleavage of the CM, in
the presence of enzyme, preferably a disease-specific enzyme. Thus,
the MM is one that when the AA is uncleaved provides for masking of
the AB from target binding, but does not substantially or
significantly interfere or compete for binding of the target to the
AB when the AA is in the cleaved conformation. Thus, the
combination of the MM and the CM facilitates the
switchable/activatable phenotype, with the MM decreasing binding of
target when the AA is uncleaved, and cleavage of the CM by protease
providing for increased binding of target.
[0156] The structural properties of the MM will vary according to a
variety of factors such as the minimum amino acid sequence required
for interference with AB binding to target, the target protein-AB
binding pair of interest, the size of the AB, the length of the CM,
whether the CM is positioned within the MM and also serves to mask
the AB in the uncleaved AA, the presence or absence of linkers, the
presence or absence of a cysteine within or flanking the AB that is
suitable for providing a CM of a cysteine-cysteine disulfide bond,
and the like.
[0157] One strategy for masking an antibody or fragment thereof
(AB) in an AA is to provide the AA in a loop that sterically
hinders access of target to the AB. In this strategy, cysteines are
positioned at or near the N-terminus, C-terminus, or AB of the AA,
such that upon formation of a disulfide bond between the cysteines,
the AB is masked.
[0158] In some embodiments, the MM is coupled to the AA by covalent
binding. In another embodiment, the AA composition is prevented
from binding to the target by binding the MM to an N-terminus of
the AA. In yet another embodiment, the AA is coupled to the MM by
cysteine-cysteine disulfide bridges between the MM and the AA.
[0159] The MM can be provided in a variety of different forms. In
certain embodiments, the MM can be selected to be a known binding
partner of the AB, provided that the MM binds the AB with less
affinity and/or avidity than the target protein to which the AB is
designed to bind following cleavage of the CM so as to reduce
interference of MM in target-AB binding. Stated differently, as
discussed above, the MM is one that masks the AB from target
binding when the AA is uncleaved, but does not substantially or
significantly interfere or compete for binding for target when the
AA is in the cleaved conformation. In a specific embodiment, the AB
and MM do not contain the amino acid sequences of a
naturally-occurring binding partner pair, such that at least one of
the AB and MM does not have the amino acid sequence of a member of
a naturally occurring binding partner
[0160] The efficiency of the MM to inhibit the binding of the AB to
its target when coupled can be measured by a Masking Efficiency
measure, using an immunoabsorbant Target Displacement Assay, as
described herein in the Examples section of the disclosure. Masking
efficiency of MMs is determined by at least two parameters:
affinity of the MM for the antibody or fragment thereof and the
spatial relationship of the MM relative to the binding interface of
the AB to its target.
[0161] Regarding affinity, by way of example, an MM may have high
affinity but only partially inhibit the binding site on the AB,
while another MM may have a lower affinity for the AB but fully
inhibit target binding. For short time periods, the lower affinity
MM may show sufficient masking; in contrast, over time, that same
MM may be displaced by the target (due to insufficient affinity for
the AB).
[0162] In a similar fashion, two MMs with the same affinity may
show different extents of masking based on how well they promote
inhibition of the binding site on the AB or prevention of the AB
from binding its target. In another example, a MM with high
affinity may bind and change the structure of the AB so that
binding to its target is completely inhibited while another MM with
high affinity may only partially inhibit binding. As a consequence,
discovery of an effective MM cannot be based only on affinity but
can include an empirical measure of Masking Efficiency. The
time-dependent target displacement of the MM in the AA can be
measured to optimize and select for MMs. A novel Target
Displacement Assay is described herein for this purpose.
[0163] In some embodiments the MM can be identified through a
screening procedure from a library of candidates AAs having
variable MMs. For example, an AB and CM can be selected to provide
for a desired enzyme/target combination, and the amino acid
sequence of the MM can be identified by the screening procedure
described below to identify an MM that provides for a switchable
phenotype. For example, a random peptide library (e.g., from about
2 to about 40 amino acids or more) may be used in the screening
methods disclosed herein to identify a suitable MM. In specific
embodiments, MMs with specific binding affinity for an antibody or
fragment thereof (AB) can be identified through a screening
procedure that includes providing a library of peptide scaffolds
consisting of candidate MMs wherein each scaffold is made up of a
transmembrane protein and the candidate MM. The library is then
contacted with an entire or portion of an AB such as a full length
antibody, a naturally occurring antibody fragment, or a
non-naturally occurring fragment containing an AB (also capable of
binding the target of interest), and identifying one or more
candidate MMs having detectably bound AB. Screening can include one
more rounds of magnetic-activated sorting (MACS) or
fluorescence-activated sorting (FACS). Screening can also included
determination of the dissociation constant (K.sub.d) of MM towards
the AB and subsequent determination of the Masking Efficiency.
[0164] In this manner, AAs having an MM that inhibits binding of
the AB to the target in an uncleaved state and allows binding of
the AB to the target in a cleaved state can be identified, and can
further provide for selection of an AA having an optimal dynamic
range for the switchable phenotype. Methods for identifying AAs
having a desirable switching phenotype are described in more detail
below.
[0165] Alternatively, the MM may not specifically bind the AB, but
rather interfere with AB-target binding through non-specific
interactions such as steric hindrance. For example, the MM may be
positioned in the uncleaved AA such that the tertiary or quaternary
structure of the AA allows the MM to mask the AB through
charge-based interaction, thereby holding the MM in place to
interfere with target access to the AB.
[0166] AAs can also be provided in a conformationally constrained
structure, such as a cyclic structure, to facilitate the switchable
phenotype. This can be accomplished by including a pair of
cysteines in the AA construct so that formation of a disulfide bond
between the cysteine pairs places the AA in a loop or cyclic
structure. Thus the AA remains cleavable by the desired protease
while providing for inhibition of target binding to the AB. Upon
cleavage of the CM, the cyclic structure is opened, allowing access
of target to the AB.
[0167] The cysteine pairs can be positioned in the AA at any
position that provides for a conformationally constrained AA, but
that, following CM reduction, does not substantially or
significantly interfere with target binding to the AB. For example,
the cysteine residues of the cysteine pair are positioned in the MM
and a linker flanked by the MM and AB, within a linker flanked by
the MM and AB, or other suitable configurations. For example, the
MM or a linker flanking an MM can include one or more cysteine
residues, which cysteine residue forms a disulfide bridge with a
cysteine residue positioned opposite the MM when the AA is in a
folded state. It is generally desirable that the cysteine residues
of the cysteine pair be positioned outside the AB so as to avoid
interference with target binding following cleavage of the AA.
Where a cysteine of the cysteine pair to be disulfide bonded is
positioned within the AB, it is desirable that it be positioned to
as to avoid interference with AB-target binding following exposure
to a reducing agent.
[0168] Exemplary AAs capable of forming a cyclic structure by
disulfide bonds between cysteines can be of the general formula
(which may be from either N- to C-terminal or from C- to N-terminal
direction):
TABLE-US-00006
X.sub.n1-(Cys.sub.1)-X.sub.m-CM-AB-(Cys.sub.2)-X.sub.n2
X.sub.n1-cyclo[(Cys.sub.1)-X.sub.m-CM-AB-(Cys.sub.2)]-X.sub.n2
wherein
[0169] X.sub.n1 and X.sub.n2 are independently, optionally present
or absent and, when present, independently represent any amino
acid, and can optionally include an amino acid sequence of a
flexible linker (e.g., at least one Gly, Ser, Asn, Asp, usually at
least one Gly or Ser, usually at least one Gly), and n.sub.1 and
n.sub.2 are independently selected from s zero or any integer,
usually nor more than 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10;
[0170] Cys.sub.1 and Cys.sub.2 represent first and second cysteines
of a pair capable of forming a disulfide bond;
[0171] X.sub.m represents amino acids of a masking motif (MM),
where X is any amino acid, wherein X.sub.m can optionally include a
flexible linker (e.g., at least one Gly, Ser, Asn, Asp, usually at
least one Gly or Ser, usually at least one Gly); and where m is an
integer greater than 1, usually 2, 3, 4, 5, 6, 7, 8, 9, 10 or more
(as described above);
[0172] CM represents a cleavable moiety (as described herein);
and
[0173] AB represents an antibody or fragment thereof (as described
herein).
[0174] As used in the formula above, cyclo indicates a disulfide
bond in the AA that provides for a cyclic structure of the AA.
Furthermore, the formula above contemplate dual target-binding AAs
wherein MM refers to an AB 1 and AB refers to AB2, where AB 1 and
AB2 are arbitrary designations for first and second ABs, and where
the target capable of binding the ABs may be the same or different
target, or the same or different binding sites of the same target.
In such embodiments, the AB1 and/or AB2 acts as a masking moiety to
interfere with target binding to an uncleaved dual target-binding
AA.
[0175] As illustrated above, the cysteines can thus be positioned
in the AA allow for one or two tails (represented by X.sub.n1 and
X.sub.n2 above), thereby generating a lasso or omega structure when
the AA is in a disulfide-bonded structure (and thus
conformationally constrained state). The amino acid sequence of the
tail(s) can provide for additional AA features, such as binding to
a target receptor to facilitate localization of the AA.
[0176] In certain specific embodiments, the MM does not inhibit
cellular entry of the AA.
[0177] (c) Cleavable Moiety (CM)
[0178] In some embodiments, the cleavable moiety (CM) of the AA may
include an amino acid sequence that can serve as a substrate for a
protease, usually an extracellular protease. In other embodiments,
the CM comprises a cysteine-cysteine pair capable of forming a
disulfide bond, which can be cleaved by action of a reducing agent.
In other embodiments the CM comprises a substrate capable of being
cleaved upon photolysis.
[0179] The CM is positioned in the AA such that when the CM is
cleaved by a cleaving agent (e.g., a protease substrate of a CM is
cleaved by the protease and/or the cysteine-cysteine disulfide bond
is disrupted via reduction by exposure to a reducing agent) or by
light-induced photolysis, in the presence of a target, resulting in
a cleaved state, the AB binds the target, and in an uncleaved
state, in the presence of the target, binding of the AB to the
target is inhibited by the MM (FIG. 2). It should be noted that the
amino acid sequence of the CM may overlap with or be included
within the MM, such that all or a portion of the CM facilitates
masking of the AB when the AA is in the uninhibited or uncleaved or
unmasked conformation.
[0180] The CM may be selected based on a protease that is
co-localized in tissue with the desired target of the AB of the AA.
A variety of different conditions are known in which a target of
interest is co-localized with a protease, where the substrate of
the protease is known in the art. In the example of cancer, the
target tissue can be a cancerous tissue, particularly cancerous
tissue of a solid tumor. There are reports in the literature of
increased levels of proteases having known substrates in a number
of cancers, e.g., solid tumors. See, e.g., La Rocca et al, (2004)
British J. of Cancer 90(7): 1414-1421. Non-liming examples of
disease include: all types of cancers (breast, lung, colorectal,
prostate, head and neck, pancreatic, etc), rheumatoid arthritis,
Crohn's disase, melanomas, SLE, cardiovascular damage, ischemia,
etc. Furthermore, anti-angiogenic targets, such as VEGF, are known.
As such, where the AB of an AA is selected such that it is capable
of binding an anti-angiogenic target such as VEGF, a suitable CM
will be one which comprises a peptide substrate that is cleavable
by a protease that is present at the cancerous treatment site,
particularly that is present at elevated levels at the cancerous
treatment site as compared to non-cancerous tissues. In one
exemplary embodiment, the AB of an AA can bind VEGF and the CM can
be a matrix metalloprotease (MMP) substrate, and thus is cleavable
by an MMP. In other embodiments, the AB of an AA can bind a target
of interest and the CM can be, for example, legumain, plasmin,
TMPRSS-3/4, MMP-9, MT1-MMP, cathepsin, caspase, human neutrophil
elastase, beta-secretase, uPA, or PSA. In other embodiments, the AA
is activated by other disease-specific proteases, in diseases other
than cancer such as multiple sclerosis or rheumatoid arthritis.
[0181] The unmodified or uncleaved CM can allow for efficient
inhibition or masking of the AB by tethering the MM to the AB. When
the CM is modified (cleaved, reduced, photolysed), the AB is no
longer inhibited or unmasked and can bind its target.
[0182] The AA can comprise more than one CM such that the AA would
comprise, for example, a first CM (CM1) and a second CM (CM2). The
CM1 and CM2 can be different substrates for the same enzyme (for
example exhibiting different binding affinities to the enzyme), or
different substrates for different enzymes, or CM1 can be an enzyme
substrate and CM2 can be a photolysis substrate, or CM1 can be an
enzyme substrate and CM2 can be a substrate for reduction, or CM1
can be a substrate for photolysis and CM2 can be a substrate for
reduction, and the like.
[0183] The CM is capable of being specifically modified (cleaved,
reduced or photolysed) by an agent (ie enzyme, reducing agent,
light) at a rate of about 0.001-1500.times.10.sup.4 M.sup.-1
S.sup.-1 or at least 0.001, 0.005, 0.01, 0.05, 0.1, 0.5, 1, 2.5, 5,
7.5, 10, 15, 20, 25, 50, 75, 100, 125, 150, 200, 250, 500, 750,
1000, 1250, or 1500.times.10.sup.4 M.sup.-1 S.sup.-1.
[0184] For specific cleavage by an enzyme, contact between the
enzyme and CM is made. When the AA comprising an AB coupled to a MM
and a CM is in the presence of target and sufficient enzyme
activity, the CM can be cleaved. Sufficient enzyme activity can
refer to the ability of the enzyme to make contact with the CM and
effect cleavage. It can readily be envisioned that an enzyme may be
in the vicinity of the CM but unable to cleave because of other
cellular factors or protein modification of the enzyme.
[0185] Exemplary substrates can include but are not limited to
substrates cleavable by one or more of the following enzymes or
proteases in Table 3.
TABLE-US-00007 TABLE 3 Exemplary Enzymes/Proteases ADAM10 Caspase 8
Cathepsin S MMP 8 ADAM12 Caspase 9 FAP MMP 9 ADAM17 Caspase 10
Granzyme B MMP-13 ADAMTS Caspase 11 Guanidinobenzoatase (GB) MMP 14
ADAMTS5 Caspase 12 Hepsin MT-SP1 BACE Caspase 13 Human Neutrophil
Elastase Neprilysin (HNE) Caspases Caspase 14 Legumain NS3/4A
Caspase 1 Cathepsins Matriptase 2 Plasmin Caspase 2 Cathepsin A
Meprin PSA Caspase 3 Cathepsin B MMP 1 PSMA Caspase 4 Cathepsin D
MMP 2 TACE Caspase 5 Cathepsin E MMP 3 TMPRSS 3/4 Caspase 6
Cathepsin K MMP 7 uPA Caspase 7 MT1-MMP
[0186] Alternatively or in addition, the AB of an AA can be one
that binds a target of interest and the CM can involve a disulfide
bond of a cysteine pair, which is thus cleavable by a reducing
agent such as, for example, but not limited to a cellular reducing
agent such as glutathione (GSH), thioredoxins, NADPH, flavins,
ascorbate, and the like, which can be present in large amounts in
tissue of or surrounding a solid tumor.
[0187] (d) Linkers
[0188] Linkers suitable for use in compositions described herein
are generally ones that provide flexibility of the modified AB or
the AA to facilitate the inhibition of the binding of the AB to the
target. Such linkers are generally referred to as flexible linkers.
Suitable linkers can be readily selected and can be of any of a
suitable of different lengths, such as from 1 amino acid (e.g.,
Gly) to 20 amino acids, from 2 amino acids to 15 amino acids, from
3 amino acids to 12 amino acids, including 4 amino acids to 10
amino acids, 5 amino acids to 9 amino acids, 6 amino acids to 8
amino acids, or 7 amino acids to 8 amino acids, and may be 1, 2, 3,
4, 5, 6, or 7 amino acids.
[0189] Exemplary flexible linkers include glycine polymers
(G).sub.n, glycine-serine polymers (including, for example,
(GS).sub.n, (GSGGS).sub.n (SEQ ID NO: 12) and (GGGS).sub.n (SEQ ID
NO: 13), where n is an integer of at least one), glycine-alanine
polymers, alanine-serine polymers, and other flexible linkers known
in the art. Glycine and glycine-serine polymers are relatively
unstructured, and therefore may be able to serve as a neutral
tether between components. Glycine accesses significantly more
phi-psi space than even alanine, and is much less restricted than
residues with longer side chains (see Scheraga, Rev. Computational
Chem. 11173-142 (1992)). Exemplary flexible linkers include, but
are not limited to Gly-Gly-Ser-Gly (SEQ ID NO: 14),
Gly-Gly-Ser-Gly-Gly (SEQ ID NO: 15), Gly-Ser-Gly-Ser-Gly (SEQ ID
NO: 16), Gly-Ser-Gly-Gly-Gly (SEQ ID NO: 17), Gly-Gly-Gly-Ser-Gly
(SEQ ID NO: 18), Gly-Ser-Ser-Ser-Gly (SEQ ID NO: 19), and the like.
The ordinarily skilled artisan will recognize that design of an AA
can include linkers that are all or partially flexible, such that
the linker can include a flexible linker as well as one or more
portions that confer less flexible structure to provide for a
desired AA structure.
[0190] (e) Additional Elements
[0191] In addition to the elements described above, the modified
ABs and AAs can contain additional elements such as, for example,
amino acid sequence N- or C-terminal of the AA. For example, AAs
can include a targeting moiety to facilitate delivery to a cell or
tissue of interest. Moreover, in the context of the AA libraries
discussed further below, the AA can be provided in the context of a
scaffold protein to facilitate display of the AA on a cell
surface.
Exemplary Embodiments
[0192] The compositions and AAs provided here in can be useful for
a variety of purposes including therapeutics and diagnostics.
[0193] An exemplary AA provided herein can be a
legumain-activatable anti-EGFR coupled to a MM, plasmin-activatable
anti-EGFR coupled to a MM, TMPRSS-3/4 activatable anti-EGFR coupled
to a MM, legumain-activatable cetuximab coupled to a MM,
plasmin-activatable cetuximab coupled to a MM, TMPRSS-3/4
activatable cetuximab coupled to a MM, legumain-activatable
vectibix coupled to a MM, plasmin-activatable vectibix coupled to a
MM, or a TMPRSS-3/4 activatable vectibix coupled to a MM. In some
embodiments these AAs can be useful for the treatment of diagnosis
of head and neck carcinomas, or colon, lung, or pancreatic
carcinomas.
[0194] An exemplary AA provided herein can be a MMP9-activatable
anti-TNFalpha coupled to a MM, MT1-MMP-activatable anti-TNFalpha
coupled to a MM, cathepsin-activatable anti-TNFalpha coupled to a
MM, MMP9-activatable infliximab coupled to a MM,
MT1-MMP-activatable infliximab coupled to a MM,
cathepsin-activatable infliximab coupled to a MM, MMP9-activatable
adalimumab coupled to a MM, MT1-MMP-activatable adalimumab coupled
to a MM, or a cathepsin-activatable adalimumab coupled to a MM. In
some embodiments these AAs can be useful for the treatment of
diagnosis of rheumatoid arthritis or multiple sclerosis.
[0195] An exemplary AA provided herein can be a
legumain-activatable anti-CD11a coupled to a MM,
plasmin-activatable anti-CD11a coupled to a MM, caspase-activatable
anti-CD11a coupled to a MM, cathepsin-activatable anti-CD11a
coupled to a MM, legumain-activatable efalizumab coupled to a MM,
plasmin-activatable efalizumab coupled to a MM, caspase-activatable
efalizumab coupled to a MM, cathepsin-activatable efalizumab
coupled to a MM, legumain-activatable anti-CSFR coupled to a MM,
plasmin-activatable anti-CSFR coupled to a MM, caspase-activatable
anti-CSFR coupled to a MM, or a cathepsin-activatable anti-CSFR
coupled to a MM. In some embodiments these AAs can be useful for
the treatment or diagnosis of tumor associated macrophages for
carcinomas.
[0196] An exemplary AA provided herein can be a plasmin-activatable
anti-CTLA-4 coupled to a MM, caspase-activatable anti-CTLA-4
coupled to a MM, MT1-MMP-activatable anti-CTLA-4 coupled to a MM,
plasmin-activatable ipilimumab coupled to a MM, caspase-activatable
ipilimumab coupled to a MM,
[0197] MT1-MMP-activatable ipilimumab coupled to a MM,
plasmin-activatable tremelimumab coupled to a MM,
caspase-activatable tremelimumab coupled to a MM, or a
MT1-MMP-activatable tremelimumab coupled to a MM. In some
embodiments these AAs can be useful for the treatment or diagnosis
of malignant melanomas.
[0198] An exemplary AA provided herein can be a PSA-activatable
anti-EPCAM coupled to a MM, legumain-activatable anti-EPCAM coupled
to a MM, PSA-activatable adecatumumab coupled to a MM or a
legumain-activatable adecatumumab coupled to a MM. In some
embodiments these AAs can be useful for the treatment or diagnosis
of prostate cancer.
[0199] An exemplary AA provided herein can be a human neutrophil
elastase-activatable anti-CD40L coupled to a MM, or a human
neutrophil elastase-activatable Hu5c8 coupled to a MM. In some
embodiments these AAs can be useful for the treatment or diagnosis
of lymphomas.
[0200] An exemplary AA provided herein can be a
beta-secretase-activatable anti-Notch1 coupled to a MM,
legumain-activatable anti-Notch1 coupled to a MM,
plasmin-activatable anti-Notch1 coupled to a MM, uPA-activatable
anti-Notch1 coupled to a MM, beta-secretase-activatable anti-Notch3
coupled to a MM, legumain-activatable anti-Notch3 coupled to a MM,
plasmin-activatable anti-Notch3 coupled to a MM, uPA-activatable
anti-Notch3 coupled to a MM, beta-secretase-activatable
anti-Jagged1 coupled to a MM, legumain-activatable anti-Jagged1
coupled to a MM, plasmin-activatable anti-Jagged1 coupled to a MM,
uPA-activatable anti-Jagged1 coupled to a MM,
beta-secretase-activatable anti-Jagged2 coupled to a MM,
legumain-activatable anti-Jagged2 coupled to a MM,
plasmin-activatable anti-Jagged2 coupled to a MM, or a
uPA-activatable anti-Jagged2 coupled to a MM. In some embodiments
these AAs can be useful for the treatment or diagnosis of triple
negative (ER, PR and Her2 negative) breast, head and neck, colon
and other carcinomas.
[0201] An exemplary AA provided herein can be a MMP-activatable
anti-CD52 coupled to a MM, or a MMP-activatable anti-campath
coupled to a MM. In some embodiments these AAs can be useful for
the treatment or diagnosis of multiple sclerosis.
[0202] An exemplary AA provided herein can be a MMP-activatable
anti-MUC 1 coupled to a MM, legumain-activatable anti-MUC 1 coupled
to a MM, plasmin-activatable anti-MUC 1 coupled to a MM, or a
uPA-activatable anti-MUC1 coupled to a MM. In some embodiments
these AAs can be useful for the treatment or diagnosis of
epithelial derived tumors.
[0203] An exemplary AA provided herein can be a
legumain-activatable anti-IGF1R coupled to a MM,
plasmin-activatable anti-IGF1R coupled to a MM, caspase-activatable
anti-IGF1R coupled to a MM, legumain-activatable anti-figitumumab
coupled to a MM, plasmin-activatable anti-figitumumab coupled to a
MM, or a caspase-activatable anti-figitumumab coupled to a MM. In
some embodiments these AAs can be useful for the treatment or
diagnosis of non-small cell lung, and other epithelial tumors.
[0204] An exemplary AA provided herein can be a
legumain-activatable anti-transferrin receptor coupled to a MM,
plasmin-activatable anti-transferrin receptor coupled to a MM, or a
caspase-activatable anti-transferrin receptor coupled to a MM. In
some embodiments these AAs can be useful for the treatment or
diagnosis of solid tumors, pancreatic tumors.
[0205] An exemplary AA provided herein can be a
legumain-activatable anti-gp130 coupled to a MM,
plasmin-activatable anti-gp130 coupled to a MM, or a
uPA-activatable anti-gp130 coupled to a MM. In some embodiments
these AAs can be useful for the treatment or diagnosis of solid
tumors.
[0206] In certain other non-limiting exemplary embodiments,
activatable antibody compositions include an legumain masked AB
specific for Notch1, a uPA activatable masked AB specific for
Jagged1, a plasmin activatable, masked anti-VEGF scFv, a MMP-9
activatable, masked anti-VCAM scFv, and a MMP-9 activatable masked
anti-CTLA4.
[0207] These AAs are provided by way of example only and such
enzyme activatable masked antibody AAs could be designed to any
target as listed in but not limited to those in Table 1 and by
using any antibody as listed in but not limited to those in Table
2.
[0208] Activatable Antibody Complexes
[0209] In one aspect of the invention, the AA exists as a complex
(AAC) comprising two or more ABs, as depicted in FIGS. 34-36. The
present disclosure provides complexes of activatable antibodies
(AACs), which exhibit activatable/switchable binding to one or more
target proteins. AACs generally include one or more antibodies or
antibody fragments (ABs), masking moieties (MMs), and cleavable
moieties (CMs). In some embodiments, the CM contains an amino acid
sequence that serves as a substrate for a protease of interest. In
other embodiments, the CM provides a cysteine-cysteine disulfide
bond that is cleavable by reduction. The AAC exhibits an
activatable conformation such that at least one AB is less
accessible to target when unmodified than after modification of the
CM, e.g., in the presence of a cleavage agent (e.g., a protease
that recognizes the cleavage site of the CM) or a reducing agent
(e.g. a reducing agent that reduces disulfide bonds in the CM).
[0210] The CM and AB of the AAC may be selected so that the AB
represents a binding moiety for a target of interest, and the CM
represents a substrate for a protease that is co-localized with the
target at a treatment site in a subject. In some embodiments AACs
can provide for reduced toxicity and/or adverse side effects that
could otherwise result from binding of the ABs at non-treatment
sites if they were not masked. In some embodiments, the AAC can
further comprise a detectable moiety or a diagnostic agent. In
certain embodiments the AAC is conjugated to a therapeutic agent
located outside the antigen binding region. AACs can also be used
in diagnostic and/or imaging methods or to detect the presence or
absence of a cleaving agent in a sample.
[0211] A schematic of an AAC is provided in FIG. 43. As
illustrated, the elements of the AAC are arranged so that the CM is
positioned such that in a cleaved state (or relatively active
state) and in the presence of a target, the AB binds a target,
while in an uncleaved state (or relatively inactive state) in the
presence of the target, binding of the ABs to the target is
inhibited due to the masking of the ABs by the MM in the complex.
As used herein, the term cleaved state refers to the condition of
the AAC following cleavage of the CM by a protease and/or reduction
of a cysteine-cysteine disulfide bond of the CM. The term uncleaved
state, as used herein, refers to the condition of the AAC in the
absence of cleavage of the CM by a protease and/or in the absence
reduction of a cysteine-cysteine disulfide bond of the CM. As
discussed above, the term AAC is used herein to refer to AAC in
both its uncleaved (native) state, as well as in its cleaved state.
It will be apparent to the ordinarily skilled artisan that in some
embodiments a cleaved AAC may lack an MM due to cleavage of the CM
by protease, resulting in release of at least the MM (e.g., where
the MM is not joined to the AAC by a covalent bond.)
[0212] By activatable or switchable is meant that the AAC exhibits
a first level of binding to a target when in a native or uncleaved
state (i.e., a first conformation), and a second level of binding
to the target in the cleaved state (i.e., a second conformation),
where the second level of target binding is greater than the first
level of binding. In general, access of target to the AB of the AAC
is greater in the presence of a cleaving agent capable of cleaving
the CM than in the absence of such a cleaving agent. Thus, in the
native or uncleaved state the AB is masked from target binding
(i.e., the first conformation is such that it interferes with
access of the target to the AB), and in the cleaved state the AB is
unmasked to target binding.
[0213] In general, an AAC can be designed by selecting an AB(s) of
interest and constructing the remainder of the AAC so that, when
conformationally constrained, the MM provides for masking of the
AB. Dual target binding AACs contain two ABs, which may bind the
same or different target. In specific embodiments, dual-targeting
AACs contain bispecific antibodies or antibody fragments.
[0214] In certain embodiments, a complex is comprised of two
activatable antibodies (AA), each containing an AB, CM, and MM such
that cross-masking occurs--that is, the MM on one AA interferes
with target binding by the AB on the other AA (FIG. 34A). In other
embodiments, a complex is comprised of two AAs, with each AA
containing an AB and one containing a CM and MM such that universal
cross-masking occurs--that is, the MM effects formation of the
complex and interferes with target binding by the ABs on both AAs
(FIG. 34B). In other embodiments, a complex is comprised of two
AAs, each containing two ABs, CMs, and MMs such that cross-masking
occurs--that is, the MMs on one AA interfere with target binding by
the ABs on the other AA (FIG. 34C). In other embodiments, a complex
is comprised of two AAs, with one AA containing two ABs, CMs, and
MMs such that universal cross-masking occurs--that is, the MMs
interfere with target binding by the ABs on both AAs (FIG. 34D). In
other embodiments, a complex is comprised of two molecules of a
bispecific AA where the bispecific AA contains two ABs, CMs, and
MMs such that cross-masking occurs in the complex--that is, the MM1
interferes with target binding by the AB1 on the opposite molecule,
and the MM2 interferes with target binding by the AB2 on the
opposite molecule (FIG. 34E). In other embodiments, a complex is
comprised of two molecules of a bispecific AA where the bispecific
AA contains two ABs, one CM, and one MM such that universal
cross-masking occurs in the complex--that is, the MM interferes
with target binding by both ABs (FIG. 34F).
[0215] In general, disassembly of the AAC and access of targets to
at least one of the ABs of the AACs are greater in the presence of
a cleaving agent capable of cleaving the CMs than in the absence of
such a cleaving agent (FIG. 35). The two AAs of a complex may
contain ABs that bind different targets, or that bind different
epitopes on the same target.
[0216] One of the MM/AB pairs of the complex may be used for stable
complex formation and have no therapeutic target on its own. A high
affinity MM for the non-therapeutic AB allows a stable complex to
form, even with a lower affinity MM for the therapeutic AB. The low
affinity MM for the therapeutic AB, in the context of the
multivalent complex, will be sufficient for masking the therapeutic
AB, but after cleavage will more readily dissociate. For maximum
target binding in the cleaved state, the difference in affinity of
the MM and target for the AB should be maximized.
[0217] In other embodiments, an AB may form a covalent linkage to
an MM on the opposite molecule of the complex. In the presence of a
cleaving agent the complex disassembles such that at least one of
the other ABs will bind its target (FIG. 36). Such a covalent
linkage may form between reactive amino acid side chains in the MM
and AB, eg. disulfide bond between cysteines, or by chemical
conjugation of reactive groups to the MM and a catalytic AB. For
examples of covalent binding antibodies see Chmura A. J. et al.,
Proc Natl Acad Sci USA. 2001 Jul. 17, 98(15): 8480-8484; Rader, C.
et al., Proc Natl Acad Sci USA. 2003 Apr. 29, 100(9): 5396-5400;
Armentano, F. et al., Immunology Letters 2006 Feb. 28, 103(1):
51-57.
[0218] It should be noted that although MM and CM are indicated as
distinct components, it is contemplated that the amino acid
sequences of the MM and the CM could overlap, e.g., such that the
CM is completely or partially contained within the MM. In many
embodiments it may be desirable to insert one or more linkers,
e.g., flexible linkers, into the AAC construct so as to provide for
flexibility at one or more of the MM-CM junction, the CM-AB
junction, or both. In addition to the elements described above, the
AACs can contain additional elements such as, for example, amino
acid sequence N- or C-terminal of the AAC.
[0219] Activatable Antibody Conjugates
[0220] In one aspect of the invention, the AB of the AA is further
conjugated to an agent such as a therapeutic agent, thus producing
activatable antibody conjugates (AACJs), a specific type of AA. The
agent is attached either directly or via a linker to the AB. Such
agents or linkers are selectively attached to those areas of ABs
which are not a part of nor directly involved with the antigen
binding site of the molecule. An exemplary AACJ is pictured in FIG.
20.
[0221] According to one embodiment of the present invention, an
agent may be conjugated to an AB. When delivery and release of the
agent conjugated to the AB are desired, immunoglobulin classes that
are known to activate complement are used. In other applications,
carrier immunoglobulins may be used which are not capable of
complement activation. Such immunoglobulin carriers may include:
certain classes of antibodies such IgM, IgA, IgD, IgE; certain
subclasses of IgG; or certain fragments of immunoglobulins, e.g.,
half ABs (a single heavy: light chain pair), or Fab, Fab' or (Fab')
2 fragments.
[0222] Exemplary AACJs are AAs coupled to a therapeutic agent
wherein the AB is directed to EGFR, CD44, Notch1, 2, 3 or 4 Jagged1
or 2, EpCAM, or IGF-1R.
[0223] The chemical linking methods described herein allow the
resulting AACJ to retain the ability to bind antigen and to
activate the complement cascade (when the unconjugated AA also had
such ability). As a result, when the AACJ is administered to an
individual, the subsequent formation of immune complexes with
target antigens in vivo can activate the individual's serum
complement system. The linker is designed to be susceptible to
cleavage by complement and so the agent can be cleaved at the
target site by one or more of the enzymes of the complement
cascade. The majority of the release of the agent occurs following
delivery to the target site.
[0224] In an exemplary embodiment, it is known that all cells of a
tumor do not each possess the target antigenic determinant. Thus,
delivery systems which require internalization into the target cell
will effect successful delivery to those tumor cells that possess
the antigenic determinant and that are capable of internalizing the
conjugate. Tumor cells that do possess the antigenic determinant or
are incapable of this internalization, will escape treatment.
According to the method of the present invention, AACJs deliver the
agent to the target cells. More importantly, however, once attached
to the target cell, the method described in the present invention
allows the release or activation of the active or activatable
therapeutic agent. Release or activation may be mediated by the
individual's activated by but not limited to the following:
complement enzymes, tissue plasminogen activator, urokinase,
plasmin or another enzyme having proteolytic activity, or by
activation of a photosensitizer or substrate modification. Once
released, the agent is then free to permeate the target sites,
e.g., tumor mass. As a result, the agent will act on tumor cells
that do not possess the antigenic determinant or could not
internalize the conjugate. Additionally, the entire process is not
dependent upon internalization of the conjugate.
[0225] (a) Methods for Conjugating Agents
[0226] The present invention utilizes several methods for attaching
agents to ABs (which include antibodies and fragments thereof), two
exemplary methods being attachment to the carbohydrate moieties of
the AB, or attachment to sulfhydryl groups of the AB. In certain
embodiments, the attachment does not significantly change the
essential characteristics of the AB or the AA itself, such as
immunospecificity and immunoreactivity. Additional considerations
include simplicity of reaction and stability of the antibody
conjugate produced. In certain embodiments the AB is first
conjugated to one or more agents of interest followed by attachment
of an MM and CM to produce an AACJ. In other embodiments the AB is
first attached to a MM and CM following which an agent of interest
is further conjugated producing an AACJ.
[0227] i. Attachment to Oxidized Carbohydrate Moieties
[0228] In certain embodiments, agents may be conjugated to the
carbohydrate moiety of an AB. Some of the carbohydrate moieties are
located on the Fc region of the immunoglobulin and are required in
order for C1 binding to occur. The carbohydrate moiety of the Fc
region of an immunoglobulin may be utilized in the scheme described
herein in the embodiments where the AB is an antibody or antibody
fragment that includes at least part of an Fc region.
Alternatively, the Fab or Fab' fragments of any immunoglobulins
which contain carbohydrate moieties may be utilized in the reaction
scheme described herein. An example of such an immunoglobulin is
the human IgM sequenced by Putnam et al. (1973, Science 182:
287).
[0229] The carbohydrate side chains of antibodies, Fab or Fab'
fragments or other fragments containing an AB may be selectively
oxidized to generate aldehydes. A variety of oxidizing agents can
be used, such as periodic acid, paraperiodic acid, sodium
metaperiodate and potassium metaperiodate. The resulting aldehydes
may then be reacted with amine groups (e.g., ammonia derivatives
such as primary amine, secondary amine, hydroxylamine, hydrazine,
hydrazide, phenylhydrazine, semicarbazide or thiosemicarbazide) to
form a Schiff base or reduced Schiff base (e.g., imine, enamine,
oxime, hydrazone, phenylhydrazone, semicarbazone, thiosemicarbazone
or reduced forms thereof). Chemical methods of oxidation of
antibodies are provided in U.S. Pat. No. 4,867,973 and this patent
is incorporated by reference in its entirety. Oxidation of
antibodies with these oxidizing agents can be carried out by known
methods. In the oxidation, the AB is used generally in the form of
an aqueous solution, the concentration being generally less than
100 mg/ml, preferably 1 to 20 mg/ml. When an oxygen acid or a salt
thereof is used as the oxidizing agent, it is used generally in the
form of an aqueous solution, and the concentration is generally
0.001 to 10 mM, sometimes 1.0 to 10 mM. The amount of the oxygen
acid or salt thereof depends on the kind of AB, but generally it is
used in excess, for example, twice to ten times as much as the
amount of the oxidizable carbohydrate. The optimal amount, however,
can be determined by routine experimentation.
[0230] In the process for oxidizing ABs with oxygen acids or salts
thereof, the optional ranges include a pH of from about 4 to 8, a
temperature of from 0.degree. to 37.degree. C., and a reaction
period of from about 15 minutes to 12 hours. During the oxidation
with an oxygen acid or a salt thereof, the reaction can be carried
in minimal light to prevent over oxidation.
[0231] Alternatively, the carbohydrate moiety of the AB may be
modified by enzymatic techniques so as to enable attachment to or
reaction with other chemical groups. One example of such an enzyme
is galactose oxidase which oxidizes galactose in the presence of
oxygen to form an aldehyde. Oxidation of the carbohydrate portion
of ABs may also be done with the enzyme, galactose oxidase (Cooper
et al., 1959, J. Biol. Chem. 234:445-448). The antibody is used in
aqueous solution, the concentration being generally 0.5 to 20
mg/ml. The enzyme generally is used at about 5 to 100 units per ml
of solution, at a pH ranging from about 5.5 to about 8.0. The
influence of pH, substrate concentration, buffers and buffer
concentrations on enzyme reaction are reported in Cooper et al.,
supra.
[0232] The AB conjugates, AA conjugates, or AB linker-intermediates
of the invention may be produced by reacting the oxidized AB with
any linker or agent having an available amine group selected from
the group consisting of primary amine, secondary amine, hydrazine,
hydrazide, hydroxylamine, phenylhydrazine, semicarbazide and
thiosemicarbazide groups. In an exemplary method, a solution of the
oxidized AB or AB linker at a concentration of from about 0.5 to 20
mg/ml is mixed with the agent or linker (molar ratios of reactive
amine group to antibody aldehyde ranging from about 1 to about
10,000) and the solution incubated for from about 1 to 18 hours.
Suitable temperatures are from 0.degree. to 37.degree. C. and pH
may be from about 6 to 8. After the conjugates have been formed
they can optionally be stabilized with a suitable reducing agent,
such as sodium cyanoborohydride or sodium borohydride.
[0233] ii. Attachment to Sulfhydryl Groups
[0234] When the AB is a full-length antibody or includes at least
part of the heavy chain, free sulfhydryl groups can be generated
from the disulfide bonds of the immunoglobulin molecule. This is
accomplished by mild reduction of the antibody. The disulfide bonds
of IgG, which are generally susceptible to reduction, are those
that link the two heavy chains. The disulfide bonds located near
the antigen binding region of the antibody remain relatively
unaffected. Such reduction results in the loss of ability to fix
complement but does not interfere with antibody-antigen binding
ability (Karush et al, 1979, Biochem. 18: 2226-2232). The free
sulfhydryl groups generated in the intra-heavy chain region can
then react with reactive groups of a linker or agent to form a
covalent bond which will reduce intereference with the antigen
binding site of the immunoglobulin. Such reactive groups include,
but are not limited to, reactive haloalkyl groups (including, for
example, haloacetyl groups), p-mercuribenzoate groups and groups
capable of Michael-type addition reactions (including, for example,
maleimides and groups of the type described in Mitra and Lawton,
1979, J. Amer. Chem. Soc. 101: 3097-3110). The haloalkyl can be any
alkyl group substituted with bromine, iodine or chlorine.
[0235] Details of the conditions, methods and materials suitable
for mild reduction of antibodies and antibody fragments as
described generally herein may be found in Stanworth and Turner,
1973, In Handbook of Experimental Immunology, Vol. 1, Second
Edition, Weir (ed.), Chapter 10, Blackwell Scientific Publications,
London, which chapter is incorporated herein by reference.
[0236] AB-agent conjugates (or AB-linker intermediates) which are
produced by attachment to free sulfhydryl groups of reduced
immunoglobulin or reduced antibody fragments do not or negligibly
activate complement. Thus, these conjugates may be used in in vivo
systems where cleavage and release of the agent is not desirable
(e.g., an enzyme that acts on a specific substrate). Such
conjugates may also be used when non-complement mediated release is
desired. In such an embodiment, the agent may be linked to
sulfhydryl groups on the reduced AB via linkers which are
susceptible to cleavage by enzymes having proteolytic activity,
including but not limited to trypsin, urokinase, plasmin, tissue
plasminogen activator and the like.
[0237] Although attachment of an agent to sulfhydryl groups of the
AB reduces the complement fixation ability of the conjugate, such
methods of attachment may be used to make AA conjugates for use in
the complement-mediated release system. In such an embodiment, an
agent joined to a complement-sensitive substrate linker can be
attached to sulfhydryls of reduced ABs or AAs and delivered to the
target in a mixture with non conjugated AAs that are capable of
activating complement. The latter would activate complement which
would cleave the agent from the former.
[0238] According to one embodiment of the present invention, for
attachment to sulfhydryl groups of reduced ABs or AAs, the
substrate linkers or the agents are modified by attaching an
iodoalkyl group to one end of the linker The unmodified site on the
linker may or may not be covalently attached to an agent. For
instance, the substrate linkers which are ester or amide linked to
agents are modified by the addition of an iodoalkyl group thus
forming an iodoalkyl derivative. As mentioned previously, the
linker may be one that is susceptible or resistant to cleavage by
activated complement, trypsin, plasmin, tissue plasminogen
activator, urokinase or another specific enzyme having proteolytic
activity.
[0239] (b) Agents for Conjugation to ABs
[0240] ABs may be attached to any agent which retains its essential
properties after reaction with the AB, and which enables the AB to
substantially retain immunospecificity and immunoreactivity
allowing the AA to function as appropriate. The agent can include
all chemical modifications and derivatives of agents which
substantially retain their biological activity.
[0241] When it is desired to attach an aldehyde of the oxidized
carbohydrate portion of an AB to an agent, the agent should contain
an amine group selected from the group consisting of primary amine,
secondary amine, hydrazine, hydrazide, hydroxylamine,
phenylhydrazine, semicarbazide and thiosemicarbazide groups. If the
agent does not contain any such amino group, the agent can be
modified to introduce a suitable amine group available for
coupling.
[0242] The agent to be attached to an AB for use in an AA is
selected according to the purpose of the intended application (i.e,
killing, prevention of cell proliferation, hormone therapy or gene
therapy). Such agents may include but is not limited to, for
example, pharmaceutical agents, toxins, fragments of toxins,
alkylating agents, enzymes, antibiotics, antimetabolites,
antiproliferative agents, hormones, neurotransmitters, DNA, RNA,
siRNA, oligonucleotides, antisense RNA, aptamers, diagnostics,
radiopaque dyes, radioactive isotopes, fluorogenic compounds,
magnetic labels, nanoparticles, marker compounds, lectins,
compounds which alter cell membrane permeability, photochemical
compounds, small molecules, liposomes, micelles, gene therapy
vectors, viral vectors, and the like. Non-limiting Table 4 lists
some of the exemplary pharmaceutical agents that may be employed in
the herein described invention but in no way is meant to be an
exhaustive list. Finally, combinations of agents or combinations of
different classes of agents may be used.
[0243] According to one embodiment of the present invention,
photochemicals including photosensitizers and photothermolytic
agents may be used as agents. Efficient photosensitizers include,
but are not limited to porphyrins and modified porphyrins (e.g.,
hematoporphyrin, hematoporphyrin dihydrazide, deuteroporphyrin
dihydrazide and protoporphyrin dihydrazide), rose bengal,
acridines, thiazines, xanthenes, anthraquinones, azines, flavin and
nonmetal-containing porphyrins, porphyrin-like compounds, methylene
blue, eosin, psoralin and the like. Other photosensitizers include,
but are not limited to tetracyclines (e.g., dimethylchlor
tetracycline) sulfonamides (e.g., sulfanilamide), griseofulvin,
phenothiazines, (e.g., chlorpromazine), thiazides, sulfonylurea,
and many others. Photochemicals may be designed or synthetically
prepared to absorb light at specific wavelengths. Photothermolytic
agents, such as Azure A, which are activated at the site of action
by a light source (see Anderson and Parrish, 1983, Science 220:
524-527) may be utilized as agents.
[0244] According to another embodiment of the present invention,
enzymes that catalyze substrate modification with the production of
cytotoxic by-products may be used as agents. Examples of such
enzymes include but are not limited to glucose oxidase, galactose
oxidase, xanthene oxidase and the like.
TABLE-US-00008 TABLE 4 Exemplary Pharmaceutical Agents for
Conjugation NAME/CLASS LINKAGE MANUFACTURERS(S) I. ANTIBACTERIALS
Aminoglycosides Streptomycin ester/amide Neomycin ester/amide Dow,
Lilly, Dome, Pfipharmics Kanamycin ester/amide Bristol Amikacin
ester Bristol Gentamicin ester/amide Upjohn, Wyeth, Schering
Tobramycin ester/amide Lilly Streptomycin B ester/amide Squibb
Spectinomycin ester Upjohn Ampicillin amide Squibb, Parke-Davis,
Comer, Wyeth, Upjohn, Bristol, SKF Sulfanilamide amide
Merrell-National Burroughs-Wellcome, Dow, Polymyxin amide
Parke-Davis Chloramphenicol ester Parke-Davis II. ANTIVIRALS
Acyclovir Burroughs-Wellcome Vira A ester/amide Parke-Davis
Symmetrel amide Endo III. ANTIFUNGALS Nystatin ester Squibb, Primo,
Lederle, Pfizer, Holland-Rantor IV. ANTINEOPLASTICS Adriamycin
ester/amide Adria Cerubidine ester/amide Ives Bleomycin ester/amide
Bristol Alkeran amide Burroughs-Wellcome Velban ester Lilly Oncovin
ester Lilly Fluorouracil ester Adria, Roche, Herbert Methotrexate
amide Lederle Thiotepa -- Lederle Bisantrene -- Lederle Novantrone
ester Lederle Thioguanine amide Burroughs-Wellcome Procarabizine --
Hoffman La Roche Cytarabine -- Upjohn V. RADIO-PHARMACEUTICALS
.sup.125I .sup.131I .sup.99mTc (Technetium) VI. HEAVY METALS Barium
Gold Platinum VII. ANTIMYCOPLASMALS Tylosine Spectinomycin
[0245] (c) Linkers for Conjugating Agents
[0246] The present invention utilizes several methods for attaching
agents to ABs: (a) attachment to the carbohydrate moieties of the
AB, or (b) attachment to sulfhydryl groups of the AB. According to
the invention, ABs may be covalently attached to an agent through
an intermediate linker having at least two reactive groups, one to
react with AB and one to react with the agent. The linker, which
may include any compatible organic compound, can be chosen such
that the reaction with AB (or agent) does not adversely affect AB
reactivity and selectivity. Furthermore, the attachment of linker
to agent might not destroy the activity of the agent. Suitable
linkers for reaction with oxidized antibodies or oxidized antibody
fragments include those containing an amine selected from the group
consisting of primary amine, secondary amine, hydrazine, hydrazide,
hydroxylamine, phenylhydrazine, semicarbazide and thiosemicarbazide
groups. Such reactive functional groups may exist as part of the
structure of the linker, or may be introduced by suitable chemical
modification of linkers not containing such groups.
[0247] According to the present invention, suitable linkers for
attachment to reduced ABs include those having certain reactive
groups capable of reaction with a sulfhydryl group of a reduced
antibody or fragment. Such reactive groups include, but are not
limited to: reactive haloalkyl groups (including, for example,
haloacetyl groups), p-mercuribenzoate groups and groups capable of
Michael-type addition reactions (including, for example, maleimides
and groups of the type described by Mitra and Lawton, 1979, J.
Amer. Chem. Soc. 101: 3097-3110).
[0248] The agent may be attached to the linker before or after the
linker is attached to the AB. In certain applications it may be
desirable to first produce an AB-linker intermediate in which the
linker is free of an associated agent. Depending upon the
particular application, a specific agent may then be covalently
attached to the linker. In other embodiments the AB is first
attached to the MM, CM and associated linkers and then attached to
the linker for conjugation purposes.
[0249] (i) Branched Linkers:
[0250] In specific embodiments, branched linkers which have
multiple sites for attachment of agents are utilized. For multiple
site linkers, a single covalent attachment to an AB would result in
an AB-linker intermediate capable of binding an agent at a number
of sites. The sites may be aldehyde or sulfhydryl groups or any
chemical site to which agents can be attached.
[0251] Alternatively, higher specific activity (or higher ratio of
agents to AB) can be achieved by attachment of a single site linker
at a plurality of sites on the AB. This plurality of sites may be
introduced into the AB by either of two methods. First, one may
generate multiple aldehyde groups and/or sulfhydryl groups in the
same AB. Second, one may attach to an aldehyde or sulfhydryl of the
AB a "branched linker" having multiple functional sites for
subsequent attachment to linkers. The functional sites of the
branched linker or multiple site linker may be aldehyde or
sulfhydryl groups, or may be any chemical site to which linkers may
be attached. Still higher specific activities may be obtained by
combining these two approaches, that is, attaching multiple site
linkers at several sites on the AB.
[0252] (ii) Cleavable Linkers:
[0253] Peptide linkers which are susceptible to cleavage by enzymes
of the complement system, such as but not limited to urokinase,
tissue plasminogen activator, trypsin, plasmin, or another enzyme
having proteolytic activity may be used in one embodiment of the
present invention. According to one method of the present
invention, an agent is attached via a linker susceptible to
cleavage by complement. The antibody is selected from a class which
can activate complement. The antibody-agent conjugate, thus,
activates the complement cascade and releases the agent at the
target site. According to another method of the present invention,
an agent is attached via a linker susceptible to cleavage by
enzymes having a proteolytic activity such as a urokinase, a tissue
plasimogen activator, plasmin, or trypsin. Non-liming examples of
cleavable linker sequences are provided in Table 5.
TABLE-US-00009 TABLE 5 Exemplary Linker Sequences for Conjugation
Types of Cleavable Sequences Amino Acid Sequence Plasmin cleavable
sequences Pro-urokinase PRFKIIGG (SEQ ID NO: 20) PRFRIIGG (SEQ ID
NO: 21) TGF.beta. SSRHRRALD (SEQ ID NO: 22) Plasminogen
RKSSIIIRMRDVVL (SEQ ID NO: 23) Staphylokinase SSSFDKGKYKKGDDA (SEQ
ID NO: 24) SSSFDKGKYKRGDDA (SEQ ID NO: 25) Factor Xa cleavable
sequences IEGR (SEQ ID NO: 26) IDGR (SEQ ID NO: 27) GGSIDGR (SEQ ID
NO: 28) MMP cleavable sequences Gelatinase A PLGLWA (SEQ ID NO: 29)
Collagenase cleavable sequences Calf skin collagen (.alpha.1(I)
chain) GPQGIAGQ (SEQ ID NO: 30) Calf skin collagen (.alpha.2(I)
chain) GPQGLLGA (SEQ ID NO: 31) Bovine cartilage collagen
(.alpha.1(II) chain) GIAGQ (SEQ ID NO: 32) Human liver collagen
(.alpha.1(III) chain) GPLGIAGI (SEQ ID NO: 33) Human .alpha..sub.2M
GPEGLRVG (SEQ ID NO: 34) Human PZP YGAGLGVV (SEQ ID NO: 35)
AGLGVVER (SEQ ID NO: 36) AGLGISST (SEQ ID NO: 37) Rat
.alpha..sub.1M EPQALAMS (SEQ ID NO: 38) QALAMSAI (SEQ ID NO: 39)
Rat .alpha..sub.2M AAYHLVSQ (SEQ ID NO: 40) MDAFLESS (SEQ ID NO:
41) Rat .alpha..sub.1I.sub.3(2J) ESLPVVAV (SEQ ID NO: 42) Rat
.alpha..sub.1I.sub.3(27J) SAPAVESE (SEQ ID NO: 43) Human fibroblast
collagenase DVAQFVLT (autolytic cleavages) (SEQ ID NO: 44) VAQFVLTE
(SEQ ID NO: 45) AQFVLTEG (SEQ ID NO: 46) PVQPIGPQ (SEQ ID NO:
47)
[0254] In addition agents may be attached via disulfide bonds (for
example, the disulfide bonds on a cysteine molecule) to the AB.
Since many tumors naturally release high levels of glutathione (a
reducing agent) this can reduce the disulfide bonds with subsequent
release of the agent at the site of delivery. In certain specific
embodiments the reducing agent that would modify a CM would also
modify the linker of the conjugated AA.
[0255] (iii) Spacers and Cleavable Elements:
[0256] In still another embodiment, it may be necessary to
construct the linker in such a way as to optimize the spacing
between the agent and the AB of the AA. This may be accomplished by
use of a linker of the general structure:
W--(CH2)n-Q
wherein W is either --NH--CH2- or --CH2-; Q is an amino acid,
peptide; and n is an integer from 0 to 20.
[0257] In still other embodiments, the linker may comprise a spacer
element and a cleavable element. The spacer element serves to
position the cleavable element away from the core of the AB such
that the cleavable element is more accessible to the enzyme
responsible for cleavage. Certain of the branched linkers described
above may serve as spacer elements.
[0258] Throughout this discussion, it should be understood that the
attachment of linker to agent (or of spacer element to cleavable
element, or cleavable element to agent) need not be particular mode
of attachment or reaction. Any reaction providing a product of
suitable stability and biological compatibility is acceptable.
[0259] (iv) Serum Complement and Selection of Linkers:
[0260] According to one method of the present invention, when
release of an agent is desired, an AB that is an antibody of a
class which can activate complement is used. The resulting
conjugate retains both the ability to bind antigen and activate the
complement cascade. Thus, according to this embodiment of the
present invention, an agent is joined to one end of the cleavable
linker or cleavable element and the other end of the linker group
is attached to a specific site on the AB. For example, if the agent
has an hydroxy group or an amino group, it may be attached to the
carboxy terminus of a peptide, amino acid or other suitably chosen
linker via an ester or amide bond, respectively. For example, such
agents may be attached to the linker peptide via a carbodimide
reaction. If the agent contains functional groups that would
interfere with attachment to the linker, these interfering
functional groups can be blocked before attachment and deblocked
once the product conjugate or intermediate is made. The opposite or
amino terminus of the linker is then used either directly or after
further modification for binding to an AB which is capable of
activating complement.
[0261] Linkers (or spacer elements of linkers) may be of any
desired length, one end of which can be covalently attached to
specific sites on the AB of the AA. The other end of the linker or
spacer element may be attached to an amino acid or peptide
linker.
[0262] Thus when these conjugates bind to antigen in the presence
of complement the amide or ester bond which attaches the agent to
the linker will be cleaved, resulting in release of the agent in
its active form. These conjugates, when administered to a subject,
will accomplish delivery and release of the agent at the target
site, and are particularly effective for the in vivo delivery of
pharmaceutical agents, antibiotics, antimetabolites,
antiproliferative agents and the like as presented in but not
limited to those in Table 4.
[0263] (v) Linkers for Release without Complement Activation:
[0264] In yet another application of targeted delivery, release of
the agent without complement activation is desired since activation
of the complement cascade will ultimately lyse the target cell.
Hence, this approach is useful when delivery and release of the
agent should be accomplished without killing the target cell. Such
is the goal when delivery of cell mediators such as hormones,
enzymes, corticosteroids, neurotransmitters, genes or enzymes to
target cells is desired. These conjugates may be prepared by
attaching the agent to an AB that is not capable of activating
complement via a linker that is mildly susceptible to cleavage by
serum proteases. When this conjugate is administered to an
individual, antigen-antibody complexes will form quickly whereas
cleavage of the agent will occur slowly, thus resulting in release
of the compound at the target site.
[0265] (vi) Biochemical Cross Linkers:
[0266] In other embodiments, the AA may be conjugated to one or
more therapeutic agents using certain biochemical cross-linkers.
Cross-linking reagents form molecular bridges that tie together
functional groups of two different molecules. To link two different
proteins in a step-wise manner, hetero-bifunctional cross-linkers
can be used that eliminate unwanted homopolymer formation.
Exemplary hetero-bifunctional cross-linkers are referenced in Table
6.
TABLE-US-00010 TABLE 6 Exemplary Hetero-Bifunctional Cross Linkers
HETERO-BIFUNCTIONAL CROSS-LINKERS Spacer Arm Length after cross-
Linker Reactive Toward Advantages and Applications linking SMPT
Primary amines Greater stability 11.2 A Sulfhydryls SPDP Primary
amines Thiolation 6.8 A Sulfhydryls Cleavable cross-linking LC-SPDP
Primary amines Extended spacer arm 15.6 A Sulfhydryls Sulfo-LC-SPDP
Primary amines Extender spacer arm 15.6 A Sulfhydryls Water-soluble
SMCC Primary amines Stable malcimide reactive group 11.6 A
Sulfhydryls Enzyme-antibody conjugation Hapten-carrier protein
conjugation Sulfo-SMCC Primary amines Stable maleimide reactive
group 11.6 A Sulfhydryls Water-soluble Enzyme-antibody conjugation
MBS Primary amines Enzyme-antibody conjugation 9.9 A Sulfhydryls
Hapten-carrier protein conjugation Sulfo-MBS Primary amines
Water-soluble 9.9 A Sulfhydryls SIAB Primary amines Enzyme-antibody
conjugation 10.6 A Sulfhydryls Sulfo-SIAB Primary amines
Water-soluble 10.6 A Sulfhydryls SMPB Primary amines Extended
spacer arm 14.5 A Sulfhydryls Enzyme-antibody conjugation
Sulfo-SMPB Primary amines Extended spacer arm 14.5 A Sulfhydryls
Water-soluble EDE/Sulfo-NHS Primary amines Hapten-Carrier
conjugation 0 Carboxyl groups ABH Carbohydrates Reacts with sugar
groups 11.9 A Nonselective
[0267] (vii) Non-Cleavable Linkers or Direct Attachment:
[0268] In still other embodiments of the invention, the conjugate
may be designed so that the agent is delivered to the target but
not released. This may be accomplished by attaching an agent to an
AB either directly or via a non-cleavable linker.
[0269] These non-cleavable linkers may include amino acids,
peptides, D-amino acids or other organic compounds which may be
modified to include functional groups that can subsequently be
utilized in attachment to ABs by the methods described herein.
A-general formula for such an organic linker could be
W--(CH2)n-Q
wherein W is either --NH--CH2- or --CH2-; Q is an amino acid,
peptide; and n is an integer from 0 to 20.
[0270] (viii) Non-Cleavable Conjugates:
[0271] Alternatively, a compound may be attached to ABs which do
not activate complement. When using ABs that are incapable of
complement activation, this attachment may be accomplished using
linkers that are susceptible to cleavage by activated complement or
using linkers that are not susceptible to cleavage by activated
complement.
[0272] (d) Uses of Activatable Antibody Conjugates
[0273] The AA-agent conjugates (AACJs) of the invention are useful
in therapeutics, diagnostics, substrate modification and the
like.
[0274] The AACJs of the invention are useful in a variety of
therapeutic in vivo applications such as but not limited to the
treatment of neoplasms, including cancers, adenomas, and
hyperplasias; certain immunological disorders, including autoimmune
diseases, graft-versus-host diseases (e.g., after bone marrow
transplantation), immune suppressive diseases, e.g., after kidney
or bone marrow transplantation. Treatment of such cellular
disorders involving, for example, bone marrow transplantation, may
include purging (by killing) undesired cells, e.g., malignant cells
or mature T lymphocytes.
[0275] Therapeutic applications center generally on treatment of
various cellular disorders, including those broadly described
above, by administering an effective amount of the antibody-agent
conjugates of the invention. The properties of the antibody are
such that it is immunospecific for and immunoreactive with a
particular antigen render it ideally suited for delivery of agents
to specific cells, tissues, organs or any other site having that
particular antigen.
[0276] According to this aspect of the invention, the AACJ
functions to deliver the conjugate to the target site.
[0277] The choice of ABs, linkers, and agents used to make the
AACJs depends upon the purpose of delivery. The delivery and
release or activation of agents at specific target sites may result
in selective killing or inhibition of proliferation of tumor cells,
cancer cells, fungi, bacteria, parasites, or virus. The targeted
delivery of hormones, enzymes, or neurotransmitters to selected
sites may also be accomplished. Ultimately the method of the
present invention may have an application in gene therapy programs
wherein DNA or specific genes may be delivered in vivo or in vitro
to target cells that are deficient in that particular gene.
Additionally, the conjugates may be used to reduce or prevent the
activation of oncogenes, such as myc, ras and the like.
[0278] In vivo administration may involve use of agents of AACJs in
any suitable adjuvant including serum or physiological saline, with
or without another protein, such as human serum albumin. Dosage of
the conjugates may readily be determined by one of ordinary skill,
and may differ depending upon the nature of the cellular disorder
and the agent used. Route of administration may be parenteral, with
intravenous administration generally preferred.
[0279] (i) Substrate Modification
[0280] In an alternate embodiment of the present invention,
substrate activation by the agent may be used to mediate formation
of singlet oxygen or peroxides and induce cell killing. In this
particular embodiment, the agent is an enzyme. For example,
galactose oxidase will oxidize galactose and some galactose
derivatives at the C 6 position. In the course of the oxidation
reaction, molecular oxygen is converted into hydrogen peroxide
which is toxic to neighboring cells. The enzyme glucose oxidase, a
flavoenzyme, may also be used in the embodiment of this invention.
This enzyme is highly specific for .beta.-D-glucose and can act as
an antibiotic due to peroxide formation. The enzyme may be attached
to an AB either directly or via a non-cleavable linker. A subject
is given an effective dosage of this AACJ and is then perfused with
substrate. Cell killing is mediated through the formation of
peroxides by the methods described above. The toxic effect of
peroxides may be amplified by administration of a second enzyme,
preferably of human origin, to convert its peroxide to a more toxic
hypochlorous acid. Examples of suitable enzymes include but are not
limited to myeloperoxidase, lactoperoxidase and
chloroperoxidase.
[0281] Display Methods and Compositions for Identifying and/or
Optimizing AAs
[0282] Methods for identifying and optimizing AAs, as well as
compositions useful in such methods, are described below.
[0283] (a) Libraries of AAs or Candidate AAs Displayed on
Replicable Biological Entities
[0284] In general, the screening methods to identify an AA and/or
to optimize an AA for a switchable phenotype can involve production
of a library of replicable biological entities that display on
their surface a plurality of different candidate AAs. These
libraries can then be subjected to screening methods to identify
candidate AAs having one or more desired characteristics of an
AA.
[0285] The candidate AA libraries can contain candidate AAs that
differ by one or more of the MM, linker (which may be part of the
MM), CM (which may be part of the MM), and AB. In one embodiment
the AAs in the library are variable for the MM and/or the linker,
with the AB and CM being preselected. Where the AA is to include
pairs of cysteine residues to provide a disulfide bond in the AA,
the relative position of the cysteines in the AA can be varied.
[0286] The library for screening is generally provided as a library
of replicable biological entities which display on their surface
different candidate AAs. For example, a library of candidate AAs
can include a plurality of candidate AAs displayed on the surface
of population of a replicable biological entities, wherein each
member of said plurality of candidate AAs comprises: (a) an
antibody or fragment thereof (AB); (b) a cleavable moiety (CM); and
(c) a candidate masking moiety (candidate MM), wherein the AB, CM
and candidate MM are positioned such that the ability of the
candidate MM to inhibit binding of the AB to a target in an
uncleaved state and allow binding of the AB to the target in a
cleaved state can be determined. Suitable replicable biological
entities include cells (e.g., bacteria (e.g., E. coli), yeast
(e.g., S. cerevesiae), protozoan cells, mammalian cells),
bacteriophage, and viruses. Antibody display technologies are well
known in the art.
[0287] (b) Display of Candidate AAs on the Surface of Replicable
Biological Entities
[0288] A variety of display technologies using replicable
biological entities are known in the art. These methods and
entities include, but are not limited to, display methodologies
such as mRNA and ribosome display, eukaryotic virus display, and
bacterial, yeast, and mammalian cell surface display. See Wilson,
D. S., et al. 2001 PNAS USA 98(7):3750-3755; Muller, O. J., et al.
(2003) Nat. Biotechnol. 3:312; Bupp, K. and M. J. Roth (2002) Mol.
Ther. 5(3):329 3513; Georgiou, G., et al., (1997) Nat. Biotechnol.
15(1):29 3414; and Boder, E. T. and K. D. Wittrup (1997) Nature
Biotech. 15(6):553 557. Surface display methods are attractive
since they enable application of fluorescence-activated cell
sorting (FACS) for library analysis and screening. See Daugherty,
P. S., et al. (2000) J. Immuunol. Methods 243(1 2):211 2716;
Georgiou, G. (2000) Adv. Protein Chem. 55:293 315; Daugherty, P.
S., et al. (2000) PNAS USA 97(5):2029 3418; Olsen, M. J., et al.
(2003) Methods Mol. Biol. 230:329 342; Boder, E. T. et al. (2000)
PNAS USA 97(20):10701 10705; Mattheakis, L. C., et al. (1994) PNAS
USA 91(19): 9022 9026; and Shusta, E. V., et al. (1999) Curr. Opin.
Biotech. 10(2):117 122. Additional display methodologies which may
be used to identify a peptide capable of binding to a biological
target of interest are described in U.S. Pat. No. 7,256,038, the
disclosure of which is incorporated herein by reference.
[0289] A display scaffold refers to a polypeptide which when
expressed in a host cell is presented on an extracellularly
accessible surface of the host cell and provides for presentation
of an operably linked heterologous polypeptide. For example,
display scaffolds find use in the methods disclosed herein to
facilitate screening of candidate AAs. Display scaffolds can be
provided such that a heterologous polypeptide of interest can be
readily released from the display scaffold, e.g. by action of a
protease that facilitates cleavage of the fusion protein and
release of a candidate AA from the display scaffold.
[0290] Phage display involves the localization of peptides as
terminal fusions to the coat proteins, e.g., pIII, pIIV of
bacteriophage particles. See Scott, J. K. and G. P. Smith (1990)
Science 249(4967):386 390; and Lowman, H. B., et al. (1991)
Biochem. 30(45):10832 10838. Generally, polypeptides with a
specific function of binding are isolated by incubating with a
target, washing away non-binding phage, eluting the bound phage,
and then re-amplifying the phage population by infecting a fresh
culture of bacteria.
[0291] Exemplary phage display and cell display compositions and
methods are described in U.S. Pat. Nos. 5,223,409; 5,403,484;
7,118,159; 6,979,538; 7,208,293; 5571698; and 5,837,500.
[0292] Additional exemplary display scaffolds and methods include
those described in U.S. Patent Application Publication No:
2007/0065158, published Mar. 22, 2007.
[0293] Optionally, the display scaffold can include a protease
cleavage site (different from the protease cleavage site of the CM)
to allow for cleavage of an AA or candidate AA from a surface of a
host cell.
[0294] In one embodiment, where the replicable biological entity is
a bacterial cell, suitable display scaffolds include circularly
permuted Escherichia coli outer membrane protein OmpX (CPX)
described by Rice et al, Protein Sci. (2006) 15: 825-836. See also,
U.S. Pat. No. 7,256,038, issued Aug. 14, 2007.
[0295] (c) Constructs Encoding AAs
[0296] The disclosure further provides nucleic acid constructs
which include sequences coding for AAs and/or candidate AAs.
Suitable nucleic acid constructs include, but are not limited to,
constructs which are capable of expression in a prokaryotic or
eukaryotic cell. Expression constructs are generally selected so as
to be compatible with the host cell in which they are to be
used.
[0297] For example, non-viral and/or viral constructs vectors may
be prepared and used, including plasmids, which provide for
replication of an AA- or candidate AA-encoding DNA and/or
expression in a host cell. The choice of vector will depend on the
type of cell in which propagation is desired and the purpose of
propagation. Certain constructs are useful for amplifying and
making large amounts of the desired DNA sequence. Other vectors are
suitable for expression in cells in culture. The choice of
appropriate vector is well within the skill of the art. Many such
vectors are available commercially. Methods for generating
constructs can be accomplished using methods well known in the
art.
[0298] In order to effect expression in a host cell, the
polynucleotide encoding an AA or candidate AA is operably linked to
a regulatory sequence as appropriate to facilitate the desired
expression properties. These regulatory sequences can include
promoters, enhancers, terminators, operators, repressors,
silencers, inducers, and 3' or 5' UTRs. Expression constructs
generally also provide a transcriptional and translational
initiation region as may be needed or desired, which may be
inducible or constitutive, where the coding region is operably
linked under the transcriptional control of the transcriptional
initiation region, and a transcriptional and translational
termination region. These control regions may be native to the
species from which the nucleic acid is obtained, or may be derived
from exogenous sources.
[0299] Promoters may be either constitutive or regulatable. In some
situations it may be desirable to use conditionally active
promoters, such as inducible promoters, e.g., temperature-sensitive
promoters. Inducible elements are DNA sequence elements that act in
conjunction with promoters and may bind either repressors (e.g.
lacO/LAC Iq repressor system in E. coli) or inducers (e.g.
gall/GAL4 inducer system in yeast). In such cases, transcription is
virtually shut off until the promoter is de-repressed or induced,
at which point transcription is turned-on.
[0300] Constructs, including expression constructs, can also
include a selectable marker operative in the host to facilitate,
for example, growth of host cells containing the construct of
interest. Such selectable marker genes can provide a phenotypic
trait for selection of transformed host cells such as dihydrofolate
reductase or neomycin resistance for eukaryotic cell culture.
[0301] Expression constructs can include convenient restriction
sites to provide for the insertion and removal of nucleic acid
sequences encoding the AA and/or candidate AA. Alternatively or in
addition, the expression constructs can include flanking sequences
that can serve as the basis for primers to facilitate nucleic acid
amplification (e.g., PCR-based amplification) of an AA-coding
sequence of interest.
[0302] The above described expression systems may be employed with
prokaryotes or eukaryotes in accordance with conventional ways,
depending upon the purpose for expression. In some embodiments, a
unicellular organism, such as E. coli, B. subtilis, S. cerevisiae,
insect cells in combination with baculovirus vectors, or cells of a
higher organism such as vertebrates, e.g. COS 7 cells, HEK 293,
CHO, Xenopus Oocytes, etc., may be used as the expression host
cells. Expression systems for each of these classes and types of
host cells are known in the art.
[0303] (d) Methods of Making Libraries of AAs/Candidate AAs
Displayed on Replicable Biological Entities
[0304] The present disclosure contemplates methods of making the
libraries of AAs and/or candidate AAs described herein.
[0305] In one embodiment, a method of making an AA library and/or
candidate AA library comprises: (a) constructing a set of
recombinant DNA vectors as described herein that encode a plurality
of AAs and/or candidate AAs; (b) transforming host cells with the
vectors of step (a); and (c) culturing the host cells transformed
in step (b) under conditions suitable for expression and display of
the fusion polypeptides.
[0306] (e) Production of Nucleic Acid Sequences Encoding Candidate
AAs
[0307] Production of candidate AAs for use in the screening methods
can be accomplished using methods known in the art. Polypeptide
display, single chain antibody display, antibody display and
antibody fragment display are methods well known in the art. In
general, an element of an AA e.g., MM, to be varied in the
candidate AA library is selected for randomization. The candidate
AAs in the library can be fully randomized or biased in their
randomization, e.g. in nucleotide/residue frequency generally or in
position of amino acid(s) within an element.
[0308] Methods of Screening for AAs
[0309] The present disclosure provides methods of identifying AAs,
which can be enzymatically activated AAs, reducing
agent-susceptible AAs, or an AA that is activatable by either or
both of enzymatic activation or reducing agent-based activation.
Generally, the methods include contacting a plurality of candidate
AAs with a target capable of binding an AB of the AAs and a
protease capable of cleaving a CM of the AAs, selecting a first
population of members of said plurality which bind to the target
when exposed to protease, contacting said first population with the
target in the absence of the protease, and selecting a second
population of members from said first population by depleting from
said first population members that bind the target in the absence
of the protease, wherein said method provides for selection of
candidate AAs which exhibit decreased binding to the target in the
absence of the protease as compared to target binding in the
presence of the protease.
[0310] In general, the method for screening for candidate AAs
having a desired switchable phenotype is accomplished through a
positive screening step (to identify members that bind target
following exposure to protease) and a negative screening step (to
identify members that do not bind target when not exposed to
protease). The negative screening step can be accomplished by, for
example, depleting from the population members that bind the target
in the absence of the protease. It should be noted that the library
screening methods described herein can be initiated by conducting
the negative screening first to select for candidates that do not
bind labeled target in the absence of enzyme treatment (i.e., do
not bind labeled target when not cleaved), and then conducting the
positive screening (i.e., treating with enzyme and selecting for
members which bind labeled target in the cleaved state). However,
for convenience, the screening method is described below with the
positive selection as a first step.
[0311] The positive and negative screening steps can be
conveniently conducted using flow cytometry to sort candidate AAs
based on binding of a detectably labeled target. One round or cycle
of the screening procedure involves both a positive selection step
and a negative selection step. The methods may be repeated for a
library such that multiple cycles (including complete and partial
cycles, e.g., 1.5 cycles, 2.5 cycles, etc.) are performed. In this
manner, members of the plurality of candidate AAs that exhibit the
switching characteristics of an AA may be enriched in the resulting
population.
[0312] In general, the screening methods are conducted by first
generating a nucleic acid library encoding a plurality of candidate
AAs in a display scaffold, which is in turn introduced into a
display scaffold for expression on the surface of a replicable
biological entity. As used herein, a plurality of candidate AAs
refers to a plurality of polypeptides having amino acid sequences
encoding candidate AAs, where members of the plurality are variable
with respect to the amino acid sequence of at least one of the
components of an AA, e.g., the plurality is variable with respect
to the amino acid sequence of the MM, the CM or the AB, usually the
MM.
[0313] For example, the AB and CM of the candidate AAs are held
fixed and the candidate AAs in the library are variable with
respect to the amino acid sequence of the MM. In another example, a
library can be generated to include candidate AAs having an MM that
is designed to position a cysteine residue such that disulfide bond
formation with another cysteine in the candidate AA is favored
(with other residues selected to provide an MM having an amino acid
sequence that is otherwise fully or at least partially randomized).
In another example, a library can be generated to include candidate
AAs in which the MM includes a fully randomized amino acid
sequence. Such libraries can contain candidate AAs designed by one
or more of these criterion. By screening members of said plurality
according to the methods described herein, members having candidate
MMs that provide a desired switchable phenotype can be
identified.
[0314] In one embodiment of the methods, each member of the
plurality of candidate AAs is displayed on the surface of a
replicable biological entity (exemplified here by bacterial cells).
The members of the plurality are exposed to a protease capable of
cleaving the CM of the candidate AAs and contacted with a target
which is a binding partner of the AB of the candidate AAs.
Bacterial cells displaying members comprising ABs which bind the
target after exposure to the protease are identified and/or
separated via detection of target binding (e.g., detection of a
target-AB complex). Members comprising ABs which bind the target
after protease exposure (which can lead to cleavage of the CM) are
then contacted with the target in the absence of the protease.
Bacterial cells displaying members comprising ABs which exhibit
decreased or undetectable binding to the target in the absence of
cleavage are identified and/or separated via detection of cells
lacking bound target. In this manner, members of the plurality of
candidate AAs which bind target in a cleaved state and exhibit
decreased or undetectable target binding in an uncleaved state are
identified and/or selected.
[0315] As noted above, candidate AA libraries can be constructed so
as to screen for one or more aspects of the AA constructs, e.g., to
provide for optimization of a switchable phenotype for one or more
of the MM, the CM, and the AB. One or more other elements of the AA
can be varied to facilitate optimization. For example: vary the MM,
including varying the number or position of cysteines or other
residues that can provide for different conformational
characteristics of the AA in the absence of cleaving agent (e.g.,
enzyme): vary the CM to identify a substrate that is optimized for
one or more desired characteristics (e.g., specificity of enzyme
cleavage, and the like); and/or vary the AB to provide for
optimization of switchable target binding.
[0316] In general, the elements of the candidate AA libraries are
selected according to a target protein of interest, where the AA is
to be activated to provide for enhanced binding of the target in
the presence of a cleaving agent (e.g., enzyme) that cleaves the
CM. For example, where the CM and AB are held fixed among the
library members, the CM is selected such that it is cleavable by a
cleaving agent (e.g., enzyme) that is co-localized with a target of
interest, where the target of interest is a binding partner of the
AB. In this manner, an AA can be selected such that it is
selectively activated under the appropriate biological conditions,
and thus at an appropriate biological location. For example, where
it is desired to develop an AA to be used as an anti-angiogenic
compound and exhibit a switchable phenotype for VEGF binding, the
CM of the candidate AA is selected to be a substrate for an enzyme
and/or a reducing agent that is co-localized with VEGF (e.g., a CM
cleavable by a matrix-metalloprotease). By way of another example,
where it is desired to develop an AA to be used as an
anti-angiogenic compound and exhibit a switchable phenotype for
Notch receptor binding, Jagged ligand binding, or EGFR binding, the
CM of the candidate AA is selected to be a substrate for an enzyme
and/or a reducing agent that is co-localized with the Notch
receptor, Jagged ligand, or EGFR (e.g., a CM cleavable by a uPA or
plasmin).
[0317] As discussed above, an AB is generally selected according to
a target of interest. Many targets are known in the art. Biological
targets of interest include protein targets that have been
identified as playing a role in disease. Such targets include but
are not limited to cell surface receptors and secreted binding
proteins (e.g., growth factors), soluble enzymes, structural
proteins (e.g. collagen, fibronectin), intracellular targets, and
the like. Exemplary non-limiting targets are presented in Table 1,
but other suitable targets will be readily identifiable by those of
ordinary skill in the art. In addition, many proteases are known in
the art which co-localize with targets of interest. As such,
persons of ordinary skill in the art will be able to readily
identify appropriate enzymes and enzyme substrates for use in the
above methods.
[0318] (a) Optional Enrichment for Cell Surface Display Prior to AA
Screening
[0319] Prior to the screening method, it may be desirable to enrich
for cells expressing an appropriate peptide display scaffold on the
cell surface. The optional enrichment allows for removal of cells
from the cell library that (1) do not express peptide display
scaffolds on the cell outer membrane or (2) express non-functional
peptide display scaffolds on the cell outer membrane. A
non-functional peptide display scaffold does not properly display a
candidate AA, e.g., as a result of a stop codon or a deletion
mutation.
[0320] Enrichment for cells can be accomplished by growing the cell
population and inducing expression of the peptide display
scaffolds. The cells are then sorted based on, for example,
detection of a detectable signal or moiety incorporated into the
scaffold or by use of a detectably-labeled antibody that binds to a
shared portion of the display scaffold or the AA. These methods are
described in greater detail in U.S. Patent Application Publication
No: 2007/0065158, published Mar. 22, 2007.
[0321] (b) Screening for Target Binding by Cleaved AAs
[0322] Prior to screening, the candidate AA library can be expanded
(e.g., by growth in a suitable medium in culture under suitable
conditions). Subsequent to the optional expansion, or as an initial
step, the library is subjected to a first screen to identify
candidate AAs that bind target following exposure to protease.
Accordingly, this step is often referred to herein as the positive
selection step.
[0323] In order to identify members that bind target following
protease cleavage, the candidate AA library is contacted with a
protease capable of cleaving the CM of the displayed candidate AAs
for an amount of time sufficient and under conditions suitable to
provide for cleavage of the protease substrate of the CM. A variety
of protease-CM combinations will be readily ascertainable by those
of ordinary skill in the art, where the protease is one which is
capable of cleaving the CM and one which co-localizes in vivo with
a target of interest (which is a binding partner of the AB). For
example, where the target of interest is a solid tumor associated
target (e.g. VEGF), suitable enzymes include, for example,
Matrix-Metalloproteases (e.g., MMP-2), A Disintegrin and
Metalloprotease(s) (ADAMs)/ADAM with thrombospondin-like motifs
(ADAMTS), Cathepsins and Kallikreins. The amino acid sequences of
substrates useful as CMs in the AAs described herein are known in
the art and, where desired, can be screened to identify optimal
sequences suitable for use as a CM by adaptation of the methods
described herein. Exemplary substrates can include but are not
limited to substrates cleavable by enzymes listed in Table 3.
[0324] The candidate AA library is also exposed to target for an
amount of time sufficient and under conditions suitable for target
binding, which conditions can be selected according to conditions
under which target binding to the AB would be expected. The
candidate AA library can be exposed to the protease prior to
exposure to target (e.g., to provide a population of candidate AAs
which include cleaved AAs) or in combination with exposure to
target, usually the latter so as to best model the expected in vivo
situation in which both protease and target will be present in the
same environmental milieu. Following exposure to both protease and
target, the library is then screened to select members having bound
target, which include candidate AAs in a target-AB complex.
[0325] Detection of target-bound candidate AAs can be accomplished
in a variety of ways. For example, the target may be detectably
labeled and the first population of target-bound candidate AAs may
be selected by detection of the detectable label to generate a
second population having bound target (e.g., a positive selection
for target-bound candidate AAs).
[0326] (c) Screening for Candidate AAs that do not Bind Target in
the Absence of Protease Cleavage
[0327] The population of candidate AAs selected for target binding
following exposure to protease can then be expanded (e.g., by
growth in a suitable medium in culture under suitable conditions),
and the expanded library subjected to a second screen to identify
members exhibiting decreased or no detectable binding to target in
the absence of protease exposure. The population resulting from
this second screen will include candidate AAs that, when uncleaved,
do not bind target significantly or to a detectable level.
Accordingly, this step is often referred to herein as the negative
selection step.
[0328] The population that resulted from the first screen is
contacted with target in the absence of the protease for a time
sufficient and under conditions suitable for target binding, which
conditions can be selected according to conditions under which
target binding to the AB would be expected. A negative selection
can then be performed to identify candidate AAs that are relatively
decreased for target binding, including those which exhibit no
detectably target binding. This selection can be accomplished by,
for example, use of a detectably labeled target, and subjecting the
target-exposed population to flow cytometry analysis to sort into
separate subpopulation those cells that display a candidate AA that
exhibits no detectable target binding and/or which exhibit a
relatively lower detectable signal. This subpopulation is thus
enriched for cells having a candidate AA that exhibit decreased or
undetectable binding to target in the absence of cleavage.
[0329] (d) Detectable Labels
[0330] A detectable label and detectable moiety are used
interchangeably to refer to a molecule capable of detection,
including, but not limited to, radioactive isotopes, fluorescers,
chemiluminescers, chromophores, enzymes, enzyme substrates, enzyme
cofactors, enzyme inhibitors, chromophores, dyes, metal ions, metal
sols, ligands (e.g., biotin, avidin, strepavidin or haptens) and
the like. The term fluorescer refers to a substance or a portion
thereof which is capable of exhibiting fluorescence in the
detectable range. Exemplary detectable moieties suitable for use as
target labels include affinity tags and fluorescent proteins.
[0331] The term affinity tag is used herein to denote a peptide
segment that can be attached to a target that can be detected using
a molecule that binds the affinity tag and provides a detectable
signal (e.g., a fluorescent compound or protein). In principal, any
peptide or protein for which an antibody or other specific binding
agent is available can be used as an affinity tag. Exemplary
affinity tags suitable for use include, but are not limited to, a
monocytic adaptor protein (MONA) binding peptide, a T7 binding
peptide, a streptavidin binding peptide, a polyhistidine tract,
protein A (Nilsson et al., EMBO J. 4:1075 (1985); Nilsson et al.,
Methods Enzymol. 198:3 (1991)), glutathione S transferase (Smith
and Johnson, Gene 67:31 (1988)), Glu-Glu affinity tag (Grussenmeyer
et al., Proc. Natl. Acad. Sci. USA 82:7952 (1985)), substance P,
FLAG peptide (Hopp et al., Biotechnology 6:1204 (1988)), or other
antigenic epitope or binding domain. See, in general, Ford et al.,
Protein Expression and Purification 2:95 (1991). DNA molecules
encoding affinity tags are available from commercial suppliers
(e.g., Pharmacia Biotech, Piscataway, N.J.).
[0332] Any fluorescent polypeptide (also referred to herein as a
fluorescent label) well known in the art is suitable for use as a
detectable moiety or with an affinity tag of the peptide display
scaffolds described herein. A suitable fluorescent polypeptide will
be one that can be expressed in a desired host cell, such as a
bacterial cell or a mammalian cell, and will readily provide a
detectable signal that can be assessed qualitatively
(positive/negative) and quantitatively (comparative degree of
fluorescence). Exemplary fluorescent polypeptides include, but are
not limited to, yellow fluorescent protein (YFP), cyan fluorescent
protein (CFP), GFP, mRFP, RFP (tdimer2), HCRED, etc., or any mutant
(e.g., fluorescent proteins modified to provide for enhanced
fluorescence or a shifted emission spectrum), analog, or derivative
thereof. Further suitable fluorescent polypeptides, as well as
specific examples of those listed herein, are provided in the art
and are well known.
[0333] Biotin-based labels also find use in the methods disclosed
herein. Biotinylation of target molecules and substrates is well
known, for example, a large number of biotinylation agents are
known, including amine-reactive and thiol-reactive agents, for the
biotinylation of proteins, nucleic acids, carbohydrates, carboxylic
acids; see, e.g., chapter 4, Molecular Probes Catalog, Haugland,
6th Ed. 1996, hereby incorporated by reference. A biotinylated
substrate can be detected by binding of a detectably labeled biotin
binding partner, such as avidin or streptavidin. Similarly, a large
number of haptenylation reagents are also known.
[0334] (e) Screening Methods
[0335] Any suitable method that provides for separation and
recovery of AAs of interest may be utilized. For example, a cell
displaying an AA of interest may be separated by FACS,
immunochromatography or, where the detectable label is magnetic, by
magnetic separation. As a result of the separation, the population
is enriched for cells that exhibit the desired characteristic,
e.g., exhibit binding to target following cleavage or have
decreased or no detectable binding to target in the absence of
cleavage.
[0336] For example, selection of candidate AAs having bound
detectably labeled target can be accomplished using a variety of
techniques known in the art. For example, flow cytometry (e.g.,
FACS.RTM.) methods can be used to sort detectably labeled candidate
AAs from unlabeled candidate AAs. Flow cyomtery methods can be
implemented to provide for more or less stringent requirements in
separation of the population of candidate AAs, e.g., by
modification of gating to allow for dimmer or to require brighter
cell populations in order to be separated into the second
population for further screening.
[0337] In another example, immunoaffinity chromatography can be
used to separate target-bound candidate AAs from those that do not
bind target. For example, a support (e.g., column, magnetic beads)
having bound anti-target antibody can be contacted with the
candidate AAs that have been exposed to protease and to target.
Candidate AAs having bound target bind to the anti-target antibody,
thus facilitating separation from candidate AAs lacking bound
target. Where the screening step is to provide for a population
enriched for uncleaved candidate AAs that have relatively decreased
target binding or no detectable target binding (e.g., relative to
other candidate AAs), the subpopulation of interest is those
members that lack or have a relatively decreased detectably signal
for bound target. For example, where an immunoaffinity technique is
used in such negative selection for bound target, the subpopulation
of interest is that which is not bound by the anti-target
support.
[0338] (f) Screening for Dual Target-Binding AAs
[0339] Methods for screening disclosed herein can be readily
adapted to identify dual target-binding AAs having two ABs. In
general, the method involves a library containing a plurality of
candidate AAs, wherein each member of said plurality comprises a
first AB, a second AB, a first CM and/or a second CM, a first MM,
and/or a second MM. The library is contacted with target capable of
binding at least the first AB and a cleaving agent capable of
cleaving the first CM. A first population of members of the library
is selected for binding the target in the presence of the cleaving
agent (e.g., protease for the CM). This selected population is then
subjected to the negative screen above, in which binding of target
to the library members in the absence of the cleaving agent is
assessed. A second population of members is then generated by
depleting the subpopulation of members that bind to said target in
the absence of the cleaving agent. This can be accomplished by, for
example, sorting members that are not bound to target away from
those that are bound to target, as determined by detection of a
detectably labeled target. This method thus provides for selection
of candidate AAs which exhibit decreased binding to the target in
the absence of the cleaving agent as compared to binding to said
target in the presence of the cleaving agent. This method can be
repeated for both targets.
[0340] Exemplary Variations of the Screening Methods to Select for
Candidate AAs
[0341] The above methods may be modified to select for populations
and library members that demonstrate desired characteristics.
[0342] (a) Determination of the Masking Efficiency of MMs
[0343] Masking efficiency of MMs is determined by at least two
parameters: affinity of the MM for antibody or fragment thereof and
the spatial relationship of the MM relative to the binding
interface of the AB to its target.
[0344] Regarding affinity, by way of example, an MM may have high
affinity but only partially inhibit the binding site on the AB,
while another MM may have a lower affinity for the AB but fully
inhibit target binding. For short time periods, the lower affinity
MM may show sufficient masking; in contrast, over time, that same
MM may be displaced by the target (due to insufficient affinity for
the AB).
[0345] In a similar fashion, two MMs with the same affinity may
show different extents of masking based on how well they promote
inhibition of the binding site on the AB or prevention of the AB
from binding its target. In another example, a MM with high
affinity may bind and change the structure of the AB so that
binding to its target is completely inhibited while another MM with
high affinity may only partially inhibit binding. As a consequence,
discovery of an effective MM cannot be based only on affinity but
can include an empirical measure of masking efficiency. The
time-dependent target displacement of the MM in the AA can be
measured to optimize and select for MMs. A novel Target
Displacement Assay (TDA) is described herein for this purpose.
[0346] The TDA assay can be used for the discovery and validation
of efficiently masked AAs comprises empirical determination of
masking efficiency, comparing the ability of the masked AB to bind
the target in the presence of target to the ability of the unmasked
and/or parental AB to bind the target in the presence of the
target. The binding efficiency can be expressed as a % of
equilibrium binding, as compared to unmasked/parental AB binding.
When the AB is modified with a MM and is in the presence of the
target, specific binding of the AB to its target can be reduced or
inhibited, as compared to the specific binding of the AB not
modified with an MM or the parental AB to the target. When compared
to the binding of the AB not modified with an MM or the parental AB
to the target, the AB's ability to bind the target when modified
with an MM can be reduced by at least 50%, 60%, 70%, 80%, 90%, 92%,
93%, 94%, 95%, 96%, 97%, 98%, 99% and even 100% for at least 2, 4,
6, 8, 12, 28, 24, 30, 36, 48, 60, 72, 84, 96, hours, or 5, 10, 15,
30, 45, 60, 90, 120, 150, 180 days, or 1, 2, 3, 4, 5, 6, 7, 8, 9,
10, 11, 12 months or greater when measured in vivo or in a Target
Displacement in vitro immunosorbant assay, as described herein.
[0347] (b) Iterative Screens to Identify and/or Optimize AA
Elements
[0348] The methods and candidate AA libraries described herein can
be readily adapted to provide for identification and/or
optimization of one or more elements of an AA. For example,
candidate AAs that vary with respect to any one or more of AB, CM,
linkers, and the like can be produced and subjected to the
screening methods described herein.
[0349] (c) Reducing Agent-Activatable AAs
[0350] While the methods above describe screening methods for
identifying AAs, it should be understood that an AA or candidate AA
with a CM that can facilitate formation of a cysteine-cysteine
disulfide bond in an AA and can also be subjected to the screening
methods disclosed herein. Such AAs may or may not further include a
CM (which may be the same or different CM) that may or may not
comprise a protease substrate. In these embodiments, the positive
screen described above may be conducted by exposing an AA or
candidate AA to a reducing agent (e.g., to reducing conditions)
capable of cleaving the disulfide bond of the cysteine-cysteine
pair of the AA. The negative screen can then be conducted in the
absence of the reducing conditions. As such, a library produced
having may be enriched for AAs which are activatable by exposure to
disulfide bond reducing conditions.
[0351] (d) Photo-Activatable AAs
[0352] While the methods above describe screening methods for
identifying AAs, it should be understood that an AA or candidate AA
with a CM that is photo-sensitive, and can be activated upon
photolysis are also provided. In these embodiments, the positive
screen described above may be conducted by exposing an AA or
candidate AA to light. The negative screen can then be conducted in
the absence of light. As such, a library produced having may be
enriched for AAs which are activatable by exposure to light.
[0353] (e) Number of Cycles and Scaffold Free Screening of AAs
[0354] By increasing the number of cycles of the above methods,
populations and library members that demonstrate improved switching
characteristics can be identified. Any number of cycles of
screening can be performed.
[0355] In addition, individual clones of candidate AAs can be
isolated and subjected to screening so as to determine the dynamic
range of the candidate AA. Candidate AAs can also be tested for a
desired switchable phenotype separate from the scaffold, i.e., the
candidate AA can be expressed or otherwise generated separate from
the display scaffold, and the switchable phenotype of the candidate
AA assessed in the absence of the scaffold and, where desired, in a
cell-free system (e.g., using solubilized AA).
[0356] (f) Optimization of AA Components and Switching Activity
[0357] The above methods may be modified to optimize the
performance of an AA, e.g., an AA identified in the screening
method described herein. For example, where it is desirable to
optimize the performance of the masking moiety, e.g., to provide
for improved inhibition of target binding of the AB in the
uncleaved state, the amino acid sequences of the AB and the CM may
be fixed in a candidate AA library, and the MM varied such that
members of a library have variable MMs relative to each other. The
MM may be optimized in a variety of ways including alteration in
the number and or type of amino acids that make up the MM. For
example, each member of the plurality of candidate AAs may comprise
a candidate MM, wherein the candidate MM comprises at least one
cysteine amino acid residue and the remaining amino acid residues
are variable between the members of the plurality. In a further
example, each member of the plurality of candidate AAs may comprise
a candidate MM, wherein the candidate MM comprises a cysteine amino
acid residue and a random sequence of amino acid residues, e.g., a
random sequence of 5 amino acids.
[0358] (g) Selection for Expanded Dynamic Range
[0359] As noted above, AAs having a desired dynamic range with
respect to target binding in the unmasked/cleaved versus
masked/uncleaved state are also of interest. Such AAs are those
that, for example, have no detectable binding in the presence of
target at physiological levels found at treatment and non-treatment
sites in a subject but which, once cleaved by protease, exhibit
high affinity and/or high avidity binding to target. The greater
the dynamic range of an AA, the better the switchable phenotype of
the AA. Thus AAs can be optimized to select for those having an
expanded dynamic range for target binding in the presence and
absence of a cleaving agent.
[0360] The screening methods described herein can be modified so as
to enhance selection of AAs having a desired and/or optimized
dynamic range. In general, this can be accomplished by altering the
concentrations of target utilized in the positive selection and
negative selection steps of the method such that screening for
target binding of AAs exposed to protease (i.e., the screening
population that includes cleaved AAs) is performed using a
relatively lower target concentration than when screening for
target binding of uncleaved AAs. Accordingly, the target
concentration is varied between the steps so as to provide a
selective pressure toward a switchable phenotype. Where desired,
the difference in target concentrations used at the positive and
negative selection steps can be increased with increasing cycle
number.
[0361] Use of a relatively lower concentration of target in the
positive selection step can serve to drive selection of those AA
members that have improved target binding when in the cleaved
state. For example, the screen involving protease-exposed AAs can
be performed at a target concentration that is from about 2 to
about 100 fold lower, about 2 to 50 fold lower, about 2 to 20 fold
lower, about 2 to 10-fold lower, or about 2 to 5-folder lower than
the Kd of the AB-target interaction. As a result, after selection
of the population for target-bound AAs, the selected population
will be enriched for AAs that exhibit higher affinity and/or
avidity binding relative to other AAs in the population.
[0362] Use of a relatively higher concentration of target in the
negative selection step can serve to drive selection of those AA
members that have decreased or no detectable target binding when in
the uncleaved state. For example, the screen involving AAs that
have not been exposed to protease (in the negative selection step)
can be performed at a target concentration that is from about 2 to
about 100 fold higher, about 2 to 50 fold higher, about 2 to 20
fold higher, about 2 to 10-fold higher, or about 2 to 5-folder
higher, than the Kd of the AB-target interaction. As a result,
after selection of the population for AAs that do not detectably
bind target, the selected population will be enriched for AAs that
exhibit lower binding for target when in the uncleaved state
relative to other uncleaved AAs in the population. Stated
differently, after selection of the population for AAs that do not
detectably bind target, the selected population will be enriched
for AAs for which target binding to AB is inhibited, e.g., due to
masking of the AB from target binding.
[0363] Where the AA is a dual target-binding AA, the screening
method described above can be adapted to provide for AAs having a
desired dynamic range for a first target that is capable of binding
a first AB and for a second target that is capable of binding a
second AB. Target binding to an AB that is located on a portion of
the AA that is cleaved away from the AA presented on a display
scaffold can be evaluated by assessing formation of target-AB
complexes in solution (e.g., in the culture medium), e.g.,
immunochromatography having an anti-AA fragment antibody to capture
cleaved fragment, then detecting bound, detectably labeled target
captured on the column.
[0364] (h) Testing of Soluble AAs
[0365] Candidate AAs can be tested for their ability to maintain a
switchable phenotype while in soluble form. One such method
involves the immobilization of target to support (e.g., an array,
e.g., a Biacore.TM. CM5 sensor chip surface). Immobilization of a
target of interest can be accomplished using any suitable
techniques (e.g., standard amine coupling). The surface of the
support can be blocked to reduce non-specific binding. Optionally,
the method can involve use of a control (e.g., a support that does
not contain immobilized target (e.g., to assess background binding
to the support) and/or contains a compound that serves as a
negative control (e.g., to assess specificity of binding of the
candidate AA to target versus non-target).
[0366] After the target is covalently immobilized, the candidate AA
is contacted with the support under conditions suitable to allow
for specific binding to immobilized target. The candidate AA can be
contacted with the support-immobilized target in the presence and
in the absence of a suitable cleavage agent in order to assess the
switchable phenotype. Assessment of binding of the candidate AA in
the presence of cleavage agent as compared to in the absence of
cleavage agent and, optionally, compared to binding in a negative
control provides a binding response, which in turn is indicative of
the switchable phenotype.
[0367] (i) Screening for Individual Moieties for Use in Candidate
AAs
[0368] It may be desirable to screen separately for one or more of
the moieties of a candidate AA, e.g., an AB, MM or CM, prior to
testing the candidate AA for a switchable phenotype. For example,
known methods of identifying peptide substrates cleavable by
specific proteases can be utilized to identify CMs for use in AAs
designed for activation by such proteases. In addition a variety of
methods are available for identifying peptide sequences which bind
to a target of interest. These methods can be used, for example, to
identify ABs which binds to a particular target or to identify a MM
which binds to a particular AB.
[0369] The above methods include, for example, methods in which a
moiety of a candidate AA, e.g., an AB, MM or CM, is displayed using
a replicable biological entity.
[0370] (j) Automated Screening Methods
[0371] In certain embodiments the screening methods described
herein are automated to provide convenient, real time, high volume
methods of screening a library of AAs for a desired switchable
activity. Automated methods can be designed to provide for
iterative rounds of positive and negative selection, with the
selected populations being separated and automatically subjected to
the next screen for a desired number of cycles.
[0372] Assessing candidate AAs in a population may be carried out
over time iteratively, following completion of a positive selection
step, a negative selection step, or both. In addition, information
regarding the average dynamic range of a population of candidate
AAs at selected target concentrations in the positive and negative
selection steps can be monitored and stored for later analysis,
e.g. so as to assess the effect of selective pressure of the
different target concentrations.
[0373] In some embodiments, a executable platform such as a
computer software product can control operation of the detection
and/or measuring means and can perform numerical operations
relating to the above-described steps, and generate a desired
output (e.g., flow cytometry analysis, etc.). Computer program
product comprises a computer readable storage medium having
computer-readable program code means embodied in the medium.
Hardware suitable for use in such automated apparatus will be
apparent to those of skill in the art, and may include computer
controllers, automated sample handlers, fluorescence measurement
tools, printers and optical displays. The measurement tool may
contain one or more photo detectors for measuring the fluorescence
signals from samples where fluorescently detectable molecules are
utilized. The measurement tool may also contain a
computer-controlled stepper motor so that each control and/or test
sample can be arranged as an array of samples and automatically and
repeatedly positioned opposite a photodetector during the step of
measuring fluorescence intensity.
[0374] The measurement tool (e.g., FACS) can be operatively coupled
to a general purpose or application-specific computer controller.
The controller can comprise a computer program produce for
controlling operation of the measurement tool and performing
numerical operations relating to the above-described steps. The
controller may accept set-up and other related data via a file,
disk input or data bus. A display and printer may also be provided
to visually display the operations performed by the controller. It
will be understood by those having skill in the art that the
functions performed by the controller may be realized in whole or
in part as software modules running on a general purpose computer
system. Alternatively, a dedicated stand-alone system with
application specific integrated circuits for performing the above
described functions and operations may be provided.
[0375] Methods of Use of AAs in Therapy
[0376] AAs can be incorporated into pharmaceutical compositions
containing, for example, a therapeutically effective amount of an
AA of interest and a carrier that is a pharmaceutically acceptable
excipient (also referred to as a pharmaceutically acceptable
carrier). Many pharmaceutically acceptable excipients are known in
the art, are generally selected according to the route of
administration, the condition to be treated, and other such
variables that are well understood in the art. Pharmaceutically
acceptable excipients have been amply described in a variety of
publications, including, for example, A. Gennaro (2000) Remington:
The Science and Practice of Pharmacy, 20th edition, Lippincott,
Williams, & Wilkins; Pharmaceutical Dosage Forms and Drug
Delivery Systems (1999) H. C. Ansel et al., eds., 7.sup.th ed.,
Lippincott, Williams, & Wilkins; and Handbook of Pharmaceutical
Excipients (2000) A. H. Kibbe et al., eds., 3.sup.rd ed. Amer.
Pharmaceutical Assoc. Pharmaceutical compositions can also include
other components such as pH adjusting and buffering agents,
tonicity adjusting agents, stabilizers, wetting agents and the
like. In some embodiments, nanoparticles or liposomes carry a
pharmaceutical composition comprising an AA.
[0377] Suitable components for pharmaceutical compositions of AAs
can be guided by pharmaceutical compositions that may be already
available for an AB of the AA. For example, where the, the AA
includes an antibody to EGFR, TNFalpha, CD11a, CSFR, CTLA-4, EpCAM,
VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3, Notch 4, Jagged 1,
Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130, VCAM-1, CD44,
DLL4, or IL4, for example, such AAs can be formulated in a
pharmaceutical formulation according to methods and compositions
suitable for use with that antibody.
[0378] In general, pharmaceutical formulations of one or more AAs
are prepared for storage by mixing the AA having a desired degree
of purity with optional physiologically acceptable carriers,
excipients or stabilizers (Remington's Pharmaceutical Sciences 16th
edition, Osol, A. Ed. (1980)), in the form of lyophilized
formulations or aqueous solutions. Acceptable carriers, excipients,
or stabilizers are nontoxic to recipients at the dosages and
concentrations employed, and include buffers such as phosphate,
citrate, and other organic acids; antioxidants including ascorbic
acid and methionine; preservatives (such as octadecyldimethylbenzyl
ammonium chloride; hexamethonium chloride; benzalkonium chloride,
benzethonium chloride; phenol, butyl or benzyl alcohol; alkyl
parabens such as methyl or propyl paraben; catechol; resorcinol;
cyclohexanol; 3-pentanol; and m-cresol); low molecular weight (less
than about 10 residues) polypeptide; proteins, such as serum
albumin, gelatin, or immunoglobulins; hydrophilic polymers such as
polyvinylpyrrolidone; amino acids such as glycine, glutamine,
asparagine, histidine, arginine, or lysine; monosaccharides,
disaccharides, and other carbohydrates including glucose, mannose,
or dextrins; chelating agents such as EDTA; sugars such as sucrose,
mannitol, trehalose or sorbitol; salt-forming counter-ions such as
sodium; metal complexes (e.g., Zn-protein complexes); and/or
non-ionic surfactants such as TWEEN.TM., PLURONICS.TM. or
polyethylene glycol (PEG).
[0379] The formulations to be used for in vivo administration must
be sterile. This is readily accomplished by filtration through
sterile filtration membranes. Pharmaceutical formulations may also
contain more than one active compound as necessary for the
particular indication being treated, where the additional active
compounds generally are those with activities complementary to an
AA. Such compounds are suitably present in combination in amounts
that are effective for the purpose intended.
[0380] The pharmaceutical formulation can be provided in a variety
of dosage forms such as a systemically or local injectable
preparation. The components can be provided in a carrier such as a
microcapsule, e.g., such as that prepared by coacervation
techniques or by interfacial polymerization, for example,
hydroxymethylcellulose or gelatin-microcapsule and
poly-(methylmethacylate) microcapsule, respectively, in colloidal
drug delivery systems (for example, liposomes, albumin
microspheres, microemulsions, nano-particles and nanocapsules) or
in macroemulsions. Such techniques are disclosed in Remington's
Pharmaceutical Sciences 16th edition, Osol, A. Ed. (1980).
[0381] Sustained-release preparations are also within the scope of
an AA-containing formulations. Exemplary sustained-release
preparations can include semi-permeable matrices of solid
hydrophobic polymers containing the AA, which matrices are in the
form of shaped articles, e.g., films, or microcapsule. Examples of
sustained-release matrices include polyesters, hydrogels (for
example, poly(2-hydroxyethyl-methacrylate), or poly(vinylalcohol)),
polylactides (U.S. Pat. No. 3,773,919), copolymers of L-glutamic
acid and .gamma.-ethyl-L-glutamate, non-degradable ethylene-vinyl
acetate, degradable lactic acid-glycolic acid copolymers such as
the LUPRON DEPOT.TM. (injectable microspheres composed of lactic
acid-glycolic acid copolymer and leuprolide acetate), and
poly-D-(-)-3-hydroxybutyric acid. While polymers such as
ethylene-vinyl acetate and lactic acid-glycolic acid enable release
of molecules for over 100 days, certain hydrogels release proteins
for shorter time periods.
[0382] When encapsulated AAs remain in the body for a long time,
they may denature or aggregate as a result of exposure to moisture
at physiological temperature (-37.degree. C.), resulting in
decreased biological activity and possible changes in
immunogenicity. Rational strategies can be devised for
stabilization depending on the mechanism involved. For example, if
the aggregation mechanism is discovered to be undesirable
intermolecular S--S bond formation through thio-disulfide
interchange, stabilization may be achieved by modifying sulfhydryl
residues, lyophilizing from acidic solutions, controlling moisture
content, using appropriate additives, and developing specific
polymer matrix compositions.
[0383] AAs can be conjugated to delivery vehicles for targeted
delivery of an active agent that serves a therapeutic purpose. For
example, AAs can be conjugated to nanoparticles or liposomes having
drugs encapsulated therein or associated therewith. In this manner,
specific, targeted delivery of the drug can be achieved. Methods of
linking polypeptides to liposomes are well known in the art and
such methods can be applied to link AAs to liposomes for targeted
and or selective delivery of liposome contents. By way of example,
polypeptides can be covalently linked to liposomes through
thioether bonds. PEGylated gelatin nanoparticles and PEGylated
liposomes have also been used as a support for the attachment of
polypeptides, e.g., single chain antibodies. See, e.g., Immordino
et al. (2006) Int J Nanomedicine. September; 1(3): 297-315,
incorporated by reference herein for its disclosure of methods of
conjugating polypeptides, e.g., antibody fragments, to
liposomes.
[0384] (a) Methods of Treatment
[0385] AAs described herein can be selected for use in methods of
treatment of suitable subjects according to the CM-AB combination
provided in the AA. The AA can be administered by any suitable
means, including oral, parenteral, subcutaneous, intraperitoneal,
intrapulmonary, and intranasal, and, if desired for local injection
(e.g., at the site of a solid tumor). Parenteral administration
routes include intramuscular, intravenous, intraarterial,
intraperitoneal, or subcutaneous administration.
[0386] The term treatment site or disease site is meant to refer to
a site at which an AA is designed to be switchable, as described
herein, e.g., a site at which a target for one or both ABs of an AA
and a cleaving agent capable of cleaving a CM of the AA are
co-localized, as pictorially represented in FIG. 2. Treatment sites
include tissues that can be accessed by local administration (e.g.,
injection, infusion (e.g., by catheter), etc.) or by systemic
administration (e.g., administration to a site remote from a
treatment site). Treatment sites include those that are relatively
biologically confined (e.g., an organ, sac, tumor site, and the
like).
[0387] The appropriate dosage of an AA will depend on the type of
disease to be treated, the severity and course of the disease, the
patient's clinical history and response to the AA, and the
discretion of the attending physician. AAs can suitably be
administered to the patient at one time or over a series of
treatments. AAs can be administered along with other treatments and
modes of therapies, other pharmaceutical agents, and the like.
[0388] Depending on the type and severity of the disease, about 1
.mu.g/kg to 15 mg/kg (e.g., 0.1-20 mg/kg) of an AA can serve as an
initial candidate dosage for administration to the patient,
whether, for example, by one or more separate administrations, or
by continuous infusion. A typical daily dosage might range from
about 1 .mu.g/kg to 100 mg/kg or more, depending on factors such as
those mentioned herein. For repeated administrations over several
days or longer, depending on the condition, the treatment is
sustained until a desired suppression of disease symptoms occurs.
However, other dosage regimens may be useful.
[0389] The AA composition will be formulated, dosed, and
administered in a fashion consistent with good medical practice.
Factors for consideration in this context include the particular
disorder being treated, the particular mammal being treated, the
clinical condition of the individual patient, the cause of the
disorder, the site of delivery of the AA, the method of
administration, the scheduling of administration, and other factors
known to medical practitioners. The therapeutically effective
amount of an AA to be administered will be governed by such
considerations, and is the minimum amount necessary to prevent,
ameliorate, or treat a disease or disorder.
[0390] Generally, alleviation or treatment of a disease or disorder
involves the lessening of one or more symptoms or medical problems
associated with the disease or disorder. For example, in the case
of cancer, the therapeutically effective amount of the drug can
accomplish one or a combination of the following: reduce the number
of cancer cells; reduce the tumor size; inhibit (i.e., to decrease
to some extent and/or stop) cancer cell infiltration into
peripheral organs; inhibit tumor metastasis; inhibit, to some
extent, tumor growth; and/or relieve to some extent one or more of
the symptoms associated with the cancer. In some embodiments, a
composition of this invention can be used to prevent the onset or
reoccurrence of the disease or disorder in a subject or mammal.
[0391] AAs can be used in combination (e.g., in the same
formulation or in separate formulations) with one or more
additional therapeutic agents or treatment methods (combination
therapy). An AA can be administered in admixture with another
therapeutic agent or can be administered in a separate formulation.
Therapeutic agents and/or treatment methods that can be
administered in combination with an AA, and which are selected
according to the condition to be treated, include surgery (e.g.,
surgical removal of cancerous tissue), radiation therapy, bone
marrow transplantation, chemotherapeutic treatment, certain
combinations of the foregoing, and the like.
[0392] (b) Use of AAs in Diseased Tissue Versus Healthy Tissue
[0393] The AAs of the present invention, when localized to a
healthy tissue, show little or no activation and the AB remains in
a `masked` state, or otherwise exhibits little or no binding to the
target. However, in a diseased tissue, in the presence of a
disease-specific protease, for example, capable of cleaving the CM
of the AA, the AB becomes `unmasked` or can specifically bind the
target.
[0394] A healthy tissue refers to a tissue that produces little or
no disease-specific agent capable of specifically cleaving or
otherwise modifying the CM of the AA, for example a
disease-specific protease, a disease-specific enzyme, or a
disease-specific reducing agent. A diseased tissue refers to a
tissue that produces a disease-specific agent capable of
specifically cleaving or otherwise modifying the CM of the AA, for
example a disease-specific protease, a disease-specific enzyme, or
a disease-specific reducing agent.
[0395] (c) Use of AAs in Diseased Tissue at Different Stages of a
Disease
[0396] In some embodiments, the AAs described herein are coupled to
more than one CM. Such an AA can be activated in different stages
of a disease, or activated in different compartments of the
diseased tissue. By way of example, an AB coupled to both a MMP-9
cleavable CM and a cathepsin D-cleavable CM can be activated in an
early stage tumor and in a late stage, necrosing tumor. In the
early stage tumor, the CM can be cleaved and the AA unmasked by
MMP-9. In the late stage tumor, the CM can be cleaved and the AA
unmasked by cathepsin D which is upregulated in the dying center of
late stage tumors. In another exemplary embodiment an AB coupled to
an MM and to a MMP-9-activatable CM and a caspase-activatable CM
can be cleaved at both early and late stage tumors. In another
plasmin at active sites of angiogenesis (early stage tumor) can
cleave a plasmin-cleavable CM and legumain in disease tissues with
invading macrophages can cleave a leugamain-specific CM in a late
stage tumor.
[0397] (d) Use of AAs in Anti-Angiogenic Therapies
[0398] In an exemplary embodiment where the AA contains an AB that
binds a mediator of angiogenesis such as EGFR, TNFalpha, CD11a,
CSFR, CTLA-4, EpCAM, VEGF, CD40, CD20, Notch 1, Notch 2, Notch 3,
Notch 4, Jagged 1, Jagged 2, CD52, MUC1, IGF1R, transferrin, gp130,
VCAM-1, CD44, DLL4, or IL4, the AA finds use in treatment of
conditions in which inhibition of angiogenesis is desired,
particularly those conditions in which inhibition of VEGF is of
interest. VEGF-binding AAs can include dual target binding AAs
having an AB that binds to VEGF as well as an AB that binds to a
second growth factor, such as a fibroblast growth factor (e.g.,
FGF-2), and inhibits FGF activity. Such dual target binding AAs
thus can be designed to provide for inhibition of two
angiogenesis-promoting factors, and which are activatable by a
cleaving agent (e.g., enzyme, such as a MMP or other enzymes such
as one presented in Table 3) which co-localizes at a site of
aberrant angiogenesis.
[0399] Angiogenesis-inhibiting AAs find use in treatment of solid
tumors in a subject (e.g., human), particularly those solid tumors
that have an associated vascular bed that feeds the tumor such that
inhibition of angiogenesis can provide for inhibition or tumor
growth. Anti-VEGF-based anti-angiogenesis AAs also find use in
other conditions having one or more symptoms amenable to therapy by
inhibition of abnormal angiogenesis.
[0400] In general, abnormal angiogenesis occurs when new blood
vessels either grow excessively, insufficiently or inappropriately
(e.g., the location, timing or onset of the angiogenesis being
undesired from a medical standpoint) in a diseased state or such
that it causes a diseased state. Excessive, inappropriate or
uncontrolled angiogenesis occurs when there is new blood vessel
growth that contributes to the worsening of the diseased state or
causes a diseased state, such as in cancer, especially vascularized
solid tumors and metastatic tumors (including colon, lung cancer
(especially small-cell lung cancer), or prostate cancer), diseases
caused by ocular neovascularisation, especially diabetic blindness,
retinopathies, primarily diabetic retinopathy or age-induced
macular degeneration and rubeosis; psoriasis, psoriatic arthritis,
haemangioblastoma such as haemangioma; inflammatory renal diseases,
such as glomerulonephritis, especially mesangioproliferative
glomerulonephritis, haemolytic uremic syndrome, diabetic
nephropathy or hypertensive neplirosclerosis; various inflammatory
diseases, such as arthritis, especially rheumatoid arthritis,
inflammatory bowel disease, psoriasis, sarcoidosis, arterial
arteriosclerosis and diseases occurring after transplants,
endometriosis or chronic asthma and other conditions that will be
readily recognized by the ordinarily skilled artisan. The new blood
vessels can feed the diseased tissues, destroy normal tissues, and
in the case of cancer, the new vessels can allow tumor cells to
escape into the circulation and lodge in other organs (tumor
metastases).
[0401] AA-based anti-angiogenesis therapies can also find use in
treatment of graft rejection, lung inflammation, nephrotic
syndrome, preeclampsia, pericardial effusion, such as that
associated with pericarditis, and pleural effusion, diseases and
disorders characterized by undesirable vascular permeability, e.g.,
edema associated with brain tumors, ascites associated with
malignancies, Meigs' syndrome, lung inflammation, nephrotic
syndrome, pericardial effusion, pleural effusion, permeability
associated with cardiovascular diseases such as the condition
following myocardial infarctions and strokes and the like.
[0402] Other angiogenesis-dependent diseases that may be treated
using anti-angiogenic AAs as described herein include angiofibroma
(abnormal blood of vessels which are prone to bleeding),
neovascular glaucoma (growth of blood vessels in the eye),
arteriovenous malformations (abnormal communication between
arteries and veins), nonunion fractures (fractures that will not
heal), atherosclerotic plaques (hardening of the arteries),
pyogenic granuloma (common skin lesion composed of blood vessels),
scleroderma (a form of connective tissue disease), hemangioma
(tumor composed of blood vessels), trachoma (leading cause of
blindness in the third world), hemophilic joints, vascular
adhesions and hypertrophic scars (abnormal scar formation).
[0403] Amounts of an AA for administration to provide a desired
therapeutic effect will vary according to a number of factors such
as those discussed above. In general, in the context of cancer
therapy, a therapeutically effective amount of an AA is an amount
that that is effective to inhibit angiogenesis, and thereby
facilitate reduction of, for example, tumor load, atherosclerosis,
in a subject by at least about 5%, at least about 10%, at least
about 20%, at least about 25%, at least about 50%, at least about
75%, at least about 85%, or at least about 90%, up to total
eradication of the tumor, when compared to a suitable control. In
an experimental animal system, a suitable control may be a
genetically identical animal not treated with the agent. In
non-experimental systems, a suitable control may be the tumor load
present before administering the agent. Other suitable controls may
be a placebo control.
[0404] Whether a tumor load has been decreased can be determined
using any known method, including, but not limited to, measuring
solid tumor mass; counting the number of tumor cells using
cytological assays; fluorescence-activated cell sorting (e.g.,
using antibody specific for a tumor-associated antigen) to
determine the number of cells bearing a given tumor antigen;
computed tomography scanning, magnetic resonance imaging, and/or
x-ray imaging of the tumor to estimate and/or monitor tumor size;
measuring the amount of tumor-associated antigen in a biological
sample, e.g., blood or serum; and the like.
[0405] In some embodiments, the methods are effective to reduce the
growth rate of a tumor by at least about 5%, at least about 10%, at
least about 20%, at least about 25%, at least about 50%, at least
about 75%, at least about 85%, or at least about 90%, up to total
inhibition of growth of the tumor, when compared to a suitable
control. Thus, in these embodiments, effective amounts of an AA are
amounts that are sufficient to reduce tumor growth rate by at least
about 5%, at least about 10%, at least about 20%, at least about
25%, at least about 50%, at least about 75%, at least about 85%, or
at least about 90%, up to total inhibition of tumor growth, when
compared to a suitable control. In an experimental animal system, a
suitable control may be tumor growth rate in a genetically
identical animal not treated with the agent. In non-experimental
systems, a suitable control may be the tumor load or tumor growth
rate present before administering the agent. Other suitable
controls may be a placebo control.
[0406] Whether growth of a tumor is inhibited can be determined
using any known method, including, but not limited to, an in vivo
assay for tumor growth; an in vitro proliferation assay; a
.sup.3H-thymidine uptake assay; and the like.
[0407] (e) Use of AAs in Anti-Inflammatory Therapies
[0408] In another exemplary embodiment where the AA contains an AB
that binds mediators of inflammation such as interleukins, the AA
finds use in treatment of related conditions. Interleukin-binding
AAs can include dual target binding AAs having an AB that binds to
for example IL12 as well as an AB that binds to IL23, or an AA
where a first AB binds to IL17 and a second AB binds to IL23. Such
dual target binding AAs thus can be designed to provide for
mediation of inflammation, and which are activatable by a cleaving
agent (e.g., enzyme, such as a MMP or other enzyme such as one
presented in Table 3) which co-localizes at a site of
inflammation.
[0409] Non-Therapeutic Methods of Using AAs
[0410] AAs can also be used in diagnostic and/or imaging methods.
For example, AAs having an enzymatically cleavable CM can be used
to detect the presence or absence of an enzyme that is capable of
cleaving the CM. Such AAs can be used in diagnostics, which can
include in vivo detection (e.g., qualitative or quantitative) of
enzyme activity (or, in some embodiments, an environment of
increased reduction potential such as that which can provide for
reduction of a disulfide bond) accompanied by presence of a target
of interest through measured accumulation of activated AAs in a
given tissue of a given host organism.
[0411] For example, the CM can be selected to be a protease
substrate for a protease found at the site of a tumor, at the site
of a viral or bacterial infection at a biologically confined site
(e.g., such as in an abscess, in an organ, and the like), and the
like. The AB can be one that binds a target antigen. Using methods
familiar to one skilled in the art, a detectable label (e.g., a
fluorescent label) can be conjugated to an AB or other region of an
AA. Suitable detectable labels are discussed in the context of the
above screening methods and additional specific examples are
provided below. Using an AB specific to a protein or peptide of the
disease state, along with a protease whose activity is elevated in
the disease tissue of interest, AAs will exhibit increased rate of
binding to disease tissue relative to tissues where the CM specific
enzyme is not present at a detectable level or is present at a
lower level than in disease tissue. Since small proteins and
peptides are rapidly cleared from the blood by the renal filtration
system, and because the enzyme specific for the CM is not present
at a detectable level (or is present at lower levels in
non-diseased tissues), accumulation of activated AA in the diseased
tissue is enhanced relative to non-disease tissues.
[0412] In another example, AAs can be used in to detect the
presence or absence of a cleaving agent in a sample. For example,
where the AA contains a CM susceptible to cleavage by an enzyme,
the AA can be used to detect (either qualitatively or
quantitatively) the presence of an enzyme in the sample. In another
example, where the AA contains a CM susceptible to cleavage by
reducing agent, the AA can be used to detect (either qualitatively
or quantitatively) the presence of reducing conditions in a sample.
To facilitate analysis in these methods, the AA can be detectably
labeled, and can be bound to a support (e.g., a solid support, such
as a slide or bead). The detectable label can be positioned on a
portion of the AA that is released following cleavage. The assay
can be conducted by, for example, contacting the immobilized,
detectably labeled AA with a sample suspected of containing an
enzyme and/or reducing agent for a time sufficient for cleavage to
occur, then washing to remove excess sample and contaminants. The
presence or absence of the cleaving agent (e.g., enzyme or reducing
agent) in the sample is then assessed by a change in detectable
signal of the AA prior to contacting with the sample (e.g., a
reduction in detectable signal due to cleavage of the AA by the
cleaving agent in the sample and the removal of an AA fragment to
which the detectable label is attached as a result of such
cleavage.
[0413] Such detection methods can be adapted to also provide for
detection of the presence or absence of a target that is capable of
binding the AB of the AA. Thus, the in vitro assays can be adapted
to assess the presence or absence of a cleaving agent and the
presence or absence of a target of interest. The presence or
absence of the cleaving agent can be detected by a decrease in
detectable label of the AA as described above, and the presence or
absence of the target can be detected by detection of a target-AB
complex, e.g., by use of a detectably labeled anti-target
antibody.
[0414] As discussed above, the AAs disclosed herein can comprise a
detectable label. In one embodiment, the AA comprises a detectable
label which can be used as a diagnostic agent. Non-limiting
examples of detectable labels that can be used as diagnostic agents
include imaging agents containing radioisotopes such as indium or
technetium; contrasting agents for MRI and other applications
containing iodine, gadolinium or iron oxide; enzymes such as horse
radish peroxidase, alkaline phosphatase, or .beta.-galactosidase;
fluorescent substances and fluorophores such as GFP, europium
derivatives; luminescent substances such as N-methylacrydium
derivatives or the like.
[0415] The rupture of vulnerable plaque and the subsequent
formation of a blood clot are believed to cause the vast majority
of heart attacks. Effective targeting of vulnerable plaques can
enable the delivery of stabilizing therapeutics to reduce the
likelihood of rupture.
[0416] VCAM-1 is upregulated both in regions prone to
atherosclerosis as well as at the borders of established lesions.
Iiyama, et al. (1999) Circulation Research, Am Heart Assoc. 85:
199-207. Collagenases, such as MMP-1, MMP-8 and MMP-13, are
overexpressed in human atheroma which may contribute to the rupture
of atheromatous plaques. Fricker, J. (2002) Drug Discov Today 7(2):
86-88.
[0417] In one example, AAs disclosed herein find use in diagnostic
and/or imaging methods designed to detect and/or label
atherosclerotic plaques, e.g., vulnerable atherosclerotic plaques.
By targeting proteins associated with atherosclerotic plaques, AAs
can be used to detect and/or label such plaques. For example, AAs
comprising an anti-VCAM-1 AB and a detectable label find use in
methods designed to detect and/or label atherosclerotic plaques.
These AAs can be tested in animal models, such as ApoE mice.
[0418] Biodistribution Considerations
[0419] The therapeutic potential of the compositions described
herein allow for greater biodistribution and bioavailability of the
modified AB or the AA. The compositions described herein provide an
antibody therapeutic having an improved bioavailability wherein the
affinity of binding of the antibody therapeutic to the target is
lower in a healthy tissue when compared to a diseased tissue. A
pharmaceutical composition comprising an AB coupled to a MM can
display greater affinity to the target in a diseased tissue than in
a healthy tissue. In preferred embodiments, the affinity in the
diseased tissue is 5-10,000,000 times greater than the affinity in
the healthy tissue.
[0420] Generally stated, the present disclosure provides for an
antibody therapeutic having an improved bioavailability wherein the
affinity of binding of the antibody therapeutic to its target is
lower in a first tissue when compared to the binding of the
antibody therapeutic to its target in a second tissue. By way of
example in various embodiments, the first tissue is a healthy
tissue and the second tissue is a diseased tissue; or the first
tissue is an early stage tumor and the second tissue is a late
stage tumor; the first tissue is a benign tumor and the second
tissue is a malignant tumor; the first tissue and second tissue are
spatially separated; or in a specific example, the first tissue is
epithelial tissue and the second tissue is breast, head, neck,
lung, pancreatic, nervous system, liver, prostate, urogenital, or
cervical tissue.
EXAMPLES
Example 1
Screening of Candidate Masking Moieties (MMs)
[0421] In order to produce compositions comprising antibodies and
fragments thereof (AB) coupled to MMs with desired optimal binding
and dissociation characteristics, libraries of candidate MMs are
screened. MMs having different variable amino acid sequences,
varying positions of the cysteine, various lengths, and the like
are generated. Candidate MMs are tested for their affinity of
binding to ABs of interest. Preferably, MMs not containing the
native amino acid sequence of the binding partner of the AB are
selected for construction of the modified antibodies.
[0422] Affinity maturation of MMs for ABs of interest to select for
MMs with an affinity of about 1-10 nM is carried out.
Example 2
Screening of Modified Antibody and Activatable Antibody (AA)
Libraries
[0423] In order to identify modified antibodies and AAs having
desired switching characteristics (i.e., decreased target binding
when in an masked and/or uncleaved conformation relative to target
binding when in a masked and/or cleaved conformation), libraries of
candidate modified antibodies and candidate AAs having different
variable amino acid sequences in the masking moieties (MMs),
varying positions of the cysteine in the MM, various linker
lengths, and various points of attachment to the parent AB are
generated.
[0424] A scheme for screening/sorting method to identify candidate
AAs that display the switchable phenotype is provided here. The
libraries are introduced via expression vectors resulting in
display of the AAs on the surface of bacterial cells. After
expansion of the libraries by culture, cells displaying the AA
polypeptides are then treated with the appropriate enzyme or
reducing agent to provide for cleavage or reduction of the CM.
Treated cells are then contacted with fluorescently labeled target
and the cells are sorted by FACS to isolate cells displaying AAs
which bind target after cleavage/reduction. The cells that display
target-binding constructs are then expanded by growth in culture.
The cells are then contacted with labeled target and sorted by FACS
to isolate cells displaying AAs which fail to bind labeled target
in the absence of enzyme/reducing agent. These steps represent one
cycle of the screening procedure. The cells can then be subjected
to additional cycles by expansion by growth in culture and again
subjecting the culture to all or part of the screening steps.
[0425] Library screening and sorting can also be initiated by first
selecting for candidates that do not bind labeled target in the
absence of enzyme/reduction agent treatment (i.e., do not bind
target when not cleaved/reduced).
Example 3
In Vitro Screening of Modified Antibodies to Determine Masking
Efficiency of the MM
[0426] In order to screen modified antibodies and AAs that exhibit
optimal characteristics when masked, for example, only 10% of
binding to the target when in a masked state and in the presence of
target, ABs coupled to different MMs or ABs coupled to the same MMs
at different points of attachment, or ABs coupled to the same MM
via linkers of different lengths and/or sequences are
generated.
[0427] The masking efficiency of MMs can be determined by the
affinity of the MM for AB and the spatial relationship of the MM
relative to the binding interface of the AB to its target.
Discovery of an effective MM is based on affinity and as well
optionally an empirical measure of masking efficiency. The
time-dependent target displacement of the MM in the modified
antibody or AA can be measured to optimize and select for MMs. A
immunoabsorbant Target Displacement Assay (TDA) is described herein
for the discovery and validation of efficiently masked
antibodies
[0428] In the TDA assay, the ability of an MM to inhibit AB binding
to its target at therapeutically relevant concentrations and times
is measured. The assay allows for measurement of the time-dependent
target displacement of the MM.
[0429] Briefly the antibody target is adsorbed to the wells of an
ELISA plate overnight a about 4.degree. C. The plate is blocked by
addition of about 150 .mu.l 2% non-fat dry milk (NFDM) in PBS,
about 0.5% (v/v) Tween20 (PBST), and incubation at room temperature
for about 1 hour. The plate is then washed about three times with
PBST. About 50 .mu.l superblock is added (Thermo Scientific) and
supplemented with protease inhibitors (Complete, Roche). About 50
.mu.l of an AB coupled to a MM is dissolved in superblock with
protease inhibitors (Complete, Roch) and incubated at about
37.degree. C. for different periods of time. The plate is washed
about three times with PBST. About 100 ml of anti-huIgG-HRP is
added in about 2% NFDM/PBST and incubated at room temperature for
about 1 hour. The plate is washed about four times with PBST and
about twice with PBS. The assay is developed using TMB (Thermo
Scientific) as per manufacturer's directions.
Example 4
AAs Comprising an scFv as the AB
[0430] Examples of AAs comprising an anti-Jagged1 scFv are
described herein. These AAs are inactive (masked) under normal
conditions due to the attached MM. When the scFv reaches the site
of disease, however, a disease-specific enzyme such as ADAM17 will
cleave a substrate linker connecting the peptide inhibitor to the
scFv allowing it to bind to Jagged1. Bacterial cell surface display
is used to find suitable MMs for the anti-Jagged1 scFv. In this
example, selected MMs are combined with an enzyme substrate to be
used as a trigger to create a scFv construct that becomes competent
for targeted binding after protease activation.
Construction of Protease Activated Antibody
[0431] Genes encoding AAs comprising a Jagged1 antibody in
single-chain form are produced by overlap extension PCR or total
gene synthesis and ligated into a similarly digested expression
plasmid or any other suitable bacterial, yeast, or mammalian
expression vector familiar to one skilled in the art. Full length
antibodies can be alternatively produced using commercially
available expression vectors incorporating half-life extending
moieties (e.g. the Fc region of an IgG, serum albumin, or
transferrin) and methods familiar to one skilled in the art. The
expression plasmid is then transformed or transfected into an
appropriate expression host such as BL21 for E. coli or HEK293t
cells. Single chain antibodies are harvested from overnight
cultures using a Periplasmic fraction extraction kit (Pierce), and
purified by immobilized metal ion affinity chromatography, and by
size exclusion chromatography.
Assay for Antibody Switching Activity In Vitro
[0432] Aliquots of protease-activated antibodies, at a
concentration of 1 pM-1 .mu.M are incubated in a buffered aqueous
solution separately with 0 and 50 nM enzyme for 3 hrs. The reaction
mixtures are then assayed for binding using ELISA or surface
Plasmon resonance with immobilized antigen Jagged1. An increase in
binding activity for the AA after protease treatment is indicated
by an increase in resonance units when using BIAcore.TM. SPR
instrumentation. The change in apparent dissociation constant
(K.sub.J) as a result of cleavage can then be calculated according
the instrument manufacturer's instructions (BIAcore, GE
Healthcare).
Example 5
Cloning of the Anti-VEGF scFv AB
[0433] In this and following examples an AA containing a masked
MMP-9 cleavable anti-VEGF scFv (target=VEGF; AB=anti-VEGF single
chain Fv) was constructed. As a first step in the production of
such an AA, constructs containing an anti-VEGF scFv were generated
(the AB). An anti-VEGF scFv AB (V.sub.L-linker L-V.sub.H) was
designed from the published sequence of ranibizumab (Genentech,
Chen, Y., Wiesmann, C., Fuh, G., Li, B., Christinger, H., McKay,
P., de Vos, A. M., Lowman, H. B. (1999) Selection and Analysis of
an Optimized Anti-VEGF Antibody: Crystal Structure of an
Affinity-matured Fab in Complex with Antigen J. Mol. Biol. 293,
865-881) and synthesized by Codon Devices (Cambridge, Mass.).
[0434] Ranibizumab is a monoclonal antibody Fab fragment derived
from the same parent murine antibody as bevacizumab (Presta L G,
Chen H, O'Connor S J, et al Humanization of an anti-vascular
endothelial growth factor monoclonal antibody for the therapy of
solid tumors and other disorders. Cancer Res, 57: 4593-9, 1997). It
is smaller than the parent molecule and has been affinity matured
to provide stronger binding to VEGF-A. Ranibizumab binds to and
inhibits all subtypes of vascular endothelial growth factor A
(VEGF-A). A His6 tag (SEQ ID NO: 48) at the N-terminus and a TEV
protease cleavage site were included in the design. The TEV
protease is a protease isolated from tobacco etch virus, is very
specific, and is used to separate fusion proteins following
purification. The anti-VEGF scFv nucleotide and amino acid
sequences are provided below in Tables 7 and 8.
TABLE-US-00011 anti-VEGF scFv AB nucleotide sequence (SEQ ID NO:
49)
gatattcaactgacccagagcccttcttccctgagtgccagcgtgggtgaccgtgttacgatcacttgctcggc-
cagccaagatatttctaact
acctgaattggtaccagcagaagccaggaaaggcaccaaaagtcctgatctacttcacaagttcactgcattcc-
ggcgtaccgtcgcgctttag
cggttctggcagtggtaccgacttcaccctgactatctcgagtctgcaacctgaggattttgctacatattact-
gtcagcaatattcgaccgtg
ccgtggacgttcgggcagggcaccaaagtggagattaaggggggtggaggcagcgggggaggtggctcaggcgg-
tggagggtctggcgaggtcc
agctggtagaaagcgggggcggactggtccaaccgggcggatccctgcgtctgagctgcgcggcctcgggttac-
gactttactcactacggaat
gaactgggttcgccaagcccctggtaaaggtctggaatgggtcggatggattaatacatacactggagaaccta-
cttatgctgctgatttcaaa
cgtcgctttactttctctctggatacaagtaagtcaaccgcctatctgcaaatgaacagcctgcgtgcagagga-
cacggctgtgtactattgtg
cgaaatatccttattattatggaacttcccactggtatttcgatgtatggggccagggtactctggttacagtg-
tcg
TABLE-US-00012 TABLE 8 anti-VEGF scFv AB amino acid sequence (SEQ
ID NO: 50) DIQLTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVL
IYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTV
PWTFGQGTKVEIKGGGGSGGGGSGGGGSGEVQLVESGGGLVQPGGSL
RLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFK
RRFTFSLDTSKSTAYLQMNSLRAEDTAVYYCAKYPYYYGTSHWYFDV WGQGTLVTVS
Example 6
Screening and Identification of MMs for Anti-VEGF scFv
[0435] Ranibizumab was used to screen a pooled random peptide
library, consisting of peptides that are X.sub.15
(8.3.times.10.sup.9), X.sub.4CX.sub.7CX.sub.4 (3.6.times.10.sup.9),
or X.sub.12CX.sub.3 (1.1.times.10.sup.9), where X is any amino acid
and the number represents the total diversity of the library. The
total diversity of the pooled library was 1.3.times.10.sup.10. The
screening consisted of one round of MACS and two rounds of FACS
sorting. In the first round MACS screen, 1.times.10.sup.11 cells
were probed with 150 nM biotinylated-ranibizumab, and
5.5.times.10.sup.7 binding cells were isolated. In the first FACS
screen, positive cells isolated in the MACS screen were probed with
500 nM biotinylated-ranibizumab, and visualized with neutrAvidin-PE
(Molecular Probes, Eugene, Oreg.). The second and third rounds of
FACS selections were done with 500 nM and then 100 nM Alexa-labeled
ranibizumab in the presence of 20 uM IgG. Individual clones were
sequenced and subsequently verified for their ability to bind
anti-VEGF scFv by FACS analysis. Amino acid sequences of MMs for
anti-VEGF scFv are provided in Table 9 below. (These sequences will
hereafter be referred to as 283MM, 292MM, 306MM, etc.)
TABLE-US-00013 TABLE 9 MMs for anti-VEGF scFv JS283
ATAVWNSMVKQSCYMQG (SEQ ID NO: 51) J5292 GHGMCYTILEDHCDRVR (SEQ ID
NO: 52) JS306 PCSEWQSMVQPRCYYGG (SEQ ID NO: 53) JS308
NVECCQNYNLWNCCGGR (SEQ ID NO: 54) JS311 VHAWEQLVIQELYHC (SEQ ID NO:
55) JS313 GVGLCYTILEQWCEMGR (SEQ ID NO: 56) JS314 RPPCCRDYSILECCKSD
(SEQ ID NO: 57) JS315 GAMACYNIFEYWCSAMK (SEQ ID NO: 58)
Example 7
Construction of the AA: MMP-9 Cleavable, Masked-Anti-VEGF scFv
Vectors
[0436] A CM (substrate for MMP-9) was fused to the masked anti-VEGF
scFv construct to provide a cleavable, masked AA. An exemplary
construct is provided in FIG. 4. Several exemplary AA constructs
and sequences containing different CMs are described in great
detail below. Primers utilized for construction of the exemplary
constructs are represented in Table 10 below.
TABLE-US-00014 TABLE 10 Primers utilized for construction of MMP-9
Cleavable, masked- anti-VEGF scFv CX0233
5'gaattcatgggccatcaccatcaccatcacggtgggg3' (SEQ ID NO: 59) CX0249
5'gtgagtaagcttttattacgacactgtaaccagagtaccctgg3' (SEQ ID NO: 60)
CX0270 5
'gtggcatgtgcacttggccaccttggcccactcgagctggccagactggccctgaaaatacaga-
ttttccc3' (SEQ ID NO: 61) CX0271
5'gagtgggccaaggtggccaagtgcacatgccactgggcttectgggtccgggcggttctgatatt-
caactgacccagagcc3' (SEQ ID NO: 62) CX0288 5'
ttcgagctcgaacaacaacaacaataacaataacaacaac3' (SEQ ID NO: 63) CX0289
5' gctttcaccgcaggtacttccgtagctggccagtctggcc3' (SEQ ID NO: 64)
CX0290 5' cgctccatgggccaccttggccgctgccaccagaaccgcc3' (SEQ ID NO:
65) CX0308 5' gcccagccggccatggccggccagtctggccagctcgagt3' (SEQ ID
NO: 66) CX0310 5'
ccagtgccaagcttttagtggtgatggtgatgatgcgacactgtaaccagagtaccctggcc3'
(SEQ ID NO: 67) CX0312 5'cttgtcacgaattcgggccagtctggccagctcgagt3'
(SEQ ID NO: 68) CXO314
5'cagatctaaccatggcgccgctaccgcccgacactgtaaccagagtaccctg3' (SEQ ID
NO: 69)
Cloning and Expression of the AA: a MMP-9 Cleavable, Masked
Anti-VEGF scFv as a MBP Fusion
[0437] Cloning: A MBP:anti-VEGF scFv AB fusion was cloned. The MBP
(maltose binding protein) expresses well in E. coli, as a fusion
protein, and can be purified on a maltose column, a method well
known in the art to make fusion proteins. In this example, the MBP
was used to separate the masked scFv. The His6 tagged (SEQ ID NO:
48) Anti-VEGF scFv AB was cloned into the pMa1-c4x vector (NEB) as
a C-terminal fusion with MBP using the EcoRI and HindIII
restriction sites in the multiple cloning site (MCS). The primers
CX0233 and CX0249 (Table 10) were used to amplify the Anti-VEGF
scFv AB and introduce the EcoRI and HindIII sites,
respectively.
[0438] The accepting vector for the AA (the peptide MM, the
anti-VEGF scFv AB and the MMP-9 CM) was synthesized using
polymerase chain reaction (PCR) with the overlapping primers CX0271
and CX0270 which placed the cloning site for the peptide MM's,
linker sequences, and MMP-9 CM protease site between the TEV
protease site and the anti-VEGF scFv AB. The primers CX0271 and
CX0249 (Table 10) were used to amplify the C-terminal portion of
the construct, while the primers CX0270 and CX0288 (Table 10) were
used to amplify the N-terminal portion. Products from both the
above reactions were combined for a final PCR reaction using the
outside primers, CX0249 and CX0288 (Table 10), and cloned into the
pMa1 vector as an MBP fusion using the Sad and HindIII restriction
sites.
TABLE-US-00015 TABLE 11 MBP/MM accepting site/MMP-9 CM/Anti-VEGF
scFv AB vector nucleotide sequence (SEQ ID NO: 70)
atgggccatcaccatcaccatcacggtggggaaaatctgtattttcagggccagtctggccagctcgagtgggc-
caaggtggccaagtgca
catgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttccctgagtgcca-
gcgtgggtgaccgtgtt
acgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagccaggaaaggcacc-
aaaagtcctgatctact
tcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgacttcaccctgact-
atctcgagtctgcaacc
tgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaaagtgg-
agattaaggggggtgga
ggcagcgggggaggtggctcaggcggtggagggtctggcgaggtccagctggtagaaagcgggggcggactggt-
ccaaccgggcggatccc
tgcgtctgagctgcgcggcctcgggttacgactttactcactacggaatgaactgggttcgccaagcccctggt-
aaaggtctggaatgggt
cggatggattaatacatacactggagaacctacttatgctgctgatttcaaacgtcgctttactttctctctgg-
atacaagtaagtcaacc
gcctatctgcaaatgaacagcctgcgtgcagaggacacggctgtgtactattgtgcgaaatatccttattatta-
tggaacttcccactggt atttcgatgtatggggccagggtactctggttacagtgtcg
[0439] The 306MM and 314MM (Table 9) were amplified from the ecpX
display vector using the primers CX0289 and CX0290 (Table 10), and
directionally cloned into the N-terminally masked vector using the
SfiI restriction sites. The corresponding nucleotide and amino acid
sequences are provided in Table 12 below.
TABLE-US-00016 TABLE 12 306 or 314 MM/MMP-9 CM/Anti-VEGF scFv AB
Sequences MBP/306 MM/MMP-9 CM/Anti-VEGF scFv AB nucleotide sequence
(SEQ ID NO: 71)
atgggccatcaccatcaccatcacggtggggaaaatctgtattttcagggccagtctggccagccgtgttctga-
gtggcagtcgatggt
gcagccgcgttgctattatgggggcggttctggtggcagcggccaaggtggccaagtgcacatgccactgggct-
tcctgggtccgggcg
gttctgatattcaactgacccagagcccttcttccctgagtgccagcgtgggtgaccgtgttacgatcacttgc-
tcggccagccaagat
atttctaactacctgaattggtaccagcagaagccaggaaaggcaccaaaagtcctgatctacttcacaagttc-
actgcattccggcgt
accgtcgcgctttagcggttctggcagtggtaccgacttcaccctgactatctcgagtctgcaacctgaggatt-
ttgctacatattact
gtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaaagtggagattaaggggggtggaggcagc-
gggggaggtggctca
ggcggtggagggtctggcgaggtccagctggtagaaagcgggggcggactggtccaaccgggcggatccctgcg-
tctgagctgcgcggc
ctcgggttacgactttactcactacggaatgaactgggttcgccaagcccctggtaaaggtctggaatgggtcg-
gatggattaatacat
acactggagaacctacttatgctgctgatttcaaacgtcgctttactttctctctggatacaagtaagtcaacc-
gcctatctgcaaatg
aacagcctgcgtgcagaggacacggctgtgtactattgtgcgaaatatccttattattatggaacttcccactg-
gtatttcgatgtatg gggccagggtactctggttacagtgtcg MBP/306 MM/MMP-9
CM/Anti-VEGF scFv AB amino acid sequence (SEQ ID NO: 72)
MGHHHHHHGGENLYFQGQSGQPCSEWQSMVQPRCYYGGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSA-
SVGDRVTITCSASQD
ISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGT-
KVEIKGGGGSGGGGS
GGGGSGEVQLVESGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRF-
TFSLDTSKSTAYLQM NSLRAEDTAVYYCAKYPYYYGTSHWYFDVWGQGTLVTVS MBP/314
MM/MMP-9 CM/Anti-VEGF scFv AB nucleotide sequence (SEQ ID NO: 73)
atgggccatcaccatcaccatcacggtggggaaaatctgtattttcagggccagtctggccagcggccgccgtg-
ttgccgtgattatag
tattttggagtgctgtaagagtgatggcggttctggtggcagcggccaaggtggccaagtgcacatgccactgg-
gcttcctgggtccgg
gcggttctgatattcaactgacccagagccatcttccctgagtgccagcgtgggtgaccgtgttacgatcactt-
gctcggccagccaag
atatttctaactacctgaattggtaccagcagaagccaggaaaggcaccaaaagtcctgatctacttcacaagt-
tcactgcattccggc
gtaccgtcgcgctttagcggttctggcagtggtaccgacttcaccctgactatctcgagtctgcaacctgagga-
ttttgctacatatta
ctgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaaagtggagattaaggggggtggaggca-
gcgggggaggtggct
caggcggtggagggtctggcgaggtccagctggtagaaagcgggggcggactggtccaaccgggcggatccctg-
cgtctgagctgcgcg
gcctcgggttacgactttactcactacggaatgaactgggttcgccaagcccctggtaaaggtctggaatgggt-
cggatggattaatac
atacactggagaacctacttatgctgctgatttcaaacgtcgctttactttctctctggatacaagtaagtcaa-
ccgcctatctgcaaa
tgaacagcctgcgtgcagaggacacggctgtgtactattgtgcgaaatatccttattattatggaacttcccac-
tggtatttcgatgta tggggccagggtactctggttacagtgtcg MBP/314 MM/MMP-9
CM/Anti-VEGF scFv AB amino acid sequence (SEQ ID NO: 74)
MGHHHHHHGGENLYFQGQSGQRPPCCRDYSILECCKSDGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLS-
ASVGDRVTITCSASQ
DISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQG-
TKVEIKGGGGSGGGG
SGGGGSGEVQLVESGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRR-
FTFSLDTSKSTAYLQ MNSLRAEDTAVYYCAKYPYYYGTSHWYFDVWGQGTLVTVS
[0440] Expression:
[0441] Expression of the MBP:AA fusions were conducted in a K12 TB1
strain of E. coli An ampicillin-resistant colony containing the
desired construct was used to inoculate a 5 ml overnight culture
containing LB medium supplemented with 50 .mu.g/mL Ampicillin. The
entire overnight culture was used to inoculate 500 mL of fresh LB
medium supplemented with 50 .mu.g/mL ampicillin and 0.2% Glucose
and allowed to grow at 37.degree. C. shaking at 250 rpm until an
O.D. of 0.5 was reached. Isopropylthio-.beta.-D-galactosidase was
then added to a final concentration of 0.3 mM and the culture was
allowed to grow for a further 3 hrs under the same conditions after
which the cells were harvested by centrifugation at 3000.times.g.
Inclusion bodies were purified using standard methods. Briefly, 10
mls of BPER II cell lysis reagent (Pierce). Insoluble material was
collected by centrifugation at 14,000.times.g and the soluble
proteins were discarded. The insoluble materials were resuspended
in 5 mls BPER II supplemented with 1 mg/mL lysozyme and incubated
on ice for 10 minutes after which 5 mls of BPER II diluted in water
1:20 was added and the samples were spun at 14,000.times.g. The
supernatant was removed and the pellets were wash twice in 1:20
BPERII. The purified inclusion bodies were solubilized in PBS 8 M
Urea, 10 mM BME, pH 7.4.
[0442] The MBP fusion proteins were diluted to a concentration of
approximately 1 mg/mL and refolded using a stepwise dialysis in PBS
pH 7.4 from 8 to 0 M urea through 6, 4, 2, 0.5, and 0 M urea. At
the 4, 2, and 0.5 M Urea steps 0.2 M Arginine, 2 mM reduced
Glutathione, and 0.5 mM oxidized glutathione was added. The 0M Urea
dialysis included 0.2 M Arginine. After removal of the urea, the
proteins were dialyzed against 0.05 M Arginine followed by and
extensive dialysis against PBS pH 7.4. All dialysis were conducted
at 4.degree. C. overnight. To remove aggregates, each protein was
subjected to size exclusion chromatography on a sephacryl S-200
column. Fractions containing the correctly folded proteins were
concentrated using an Amicon Ultra centrifugal filter.
Cloning and Expression of the AA: a MMP-9 Cleavable, Masked
Anti-VEGF scFv CHis Tag
[0443] Cloning:
[0444] The primers CX0308 and CX0310 (Table 10) were used to
amplify and add a NcoI restriction site to the 5' end and a HindIII
restriction site and His6 tag (SEQ ID NO: 48) to the 3' end,
respectively, of the (MM accepting site/MMP-9 CM/VEGFscFv AB)
vector which was subsequently cloned into a vector containing the
pelB signal peptide. Anti-VEGF scFv MMs were cloned as previously
described. The corresponding nucleotide and amino acid sequences
are provided in Table 13.
TABLE-US-00017 TABLE 13 306 or 314 MM/MMP-9 CM/anti-VEGF scFv CHis
AB Sequences 306 MM/MMP-9 CM/anti-VEGF scFv CHis AB nucleotide
sequence (SEQ ID NO: 75)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtg
ggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagcc-
aggaaaggcaccaaaa
gtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccga-
cttcaccctgactatc
tcgagtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggca-
gggcaccaaagtggag
attaaggggggtggaggcagcgggggaggtggctcaggcggtggagggtctggcgaggtccagctggtagaaag-
cgggggcggactggtc
caaccgggcggatccctgcgtctgagctgcgcggcctcgggttacgactttactcactacggaatgaactgggt-
tcgccaagcccctggt
aaaggtctggaatgggtcggatggattaatacatacactggagaacctacttatgctgctgatttcaaacgtcg-
ctttactttctctctg
gatacaagtaagtcaaccgcctatctgcaaatgaacagcctgcgtgcagaggacacggctgtgtactattgtgc-
gaaatatccttattat
tatggaacttcccactggtatttcgatgtatggggccagggtactctggttacagtgtcgcatcatcaccatca-
ccac 306 MM/MMP-9 CM/anti-VEGF scFv CHis AB amino acid sequence
(SEQ ID NO: 76)
GQSGQPCSEWQSMVQPRCYYGGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSASVGDRVTITCSASQDI-
SNYLNWYQQKPGKAPK
VLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGGSGGGGSGG-
GGSGEVQLVESGGGLV
QPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRFTFSLDTSKSTAYLQMNSL-
RAEDTAVYYCAKYPYY YGTSHWYFDVWGQGTLVTVSHHHHHH 314 MM/MMP-9
CM/anti-VEGF scFv CHis AB nucleotide sequence (SEQ ID NO: 77)
ggccagtctggccagcggccgccgtgttgccgtgattatagtattttggagtgctgtaagagtgatggcggttc-
tggtggcagcggccaa
ggtggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttc-
ttccctgagtgccagc
gtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaa-
gccaggaaaggcacca
aaagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtac-
cgacttcaccctgact
atctcgagtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgg-
gcagggcaccaaagtg
gagattaaggggggtggaggcagcgggggaggtggctcaggcggtggagggtctggcgaggtccagctggtaga-
aagcgggggcggactg
gtccaaccgggcggatccctgcgtctgagctgcgcggcctcgggttacgactttactcactacggaatgaactg-
ggttcgccaagcccct
ggtaaaggtctggaatgggtcggatggattaatacatacactggagaacctacttatgctgctgatttcaaacg-
tcgctttactttctct
ctggatacaagtaagtcaaccgcctatctgcaaatgaacagcctgcgtgcagaggacacggctgtgtactattg-
tgcgaaatatccttat
tattatggaacttcccactggtatttcgatgtatggggccagggtactctggttacagtgtcgcatcatcacca-
tcaccactaa 314 MM/MMP-9 CM/anti-VEGF scFv CHis AB amino acid
sequence (SEQ ID NO: 78)
GQSGQRPPCCRDYSILECCKSDGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSASVGDRVTITCSASQD-
ISNYLNWYQQKPGKAP
KVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGGSGGGGSG-
GGGSGEVQLVESGGGL
VQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRFTFSLDTSKSTAYLQMNS-
LRAEDTAVYYCAKYPY YYGTSHWYFDVWGQGTLVTVSHHHHHH
[0445] Expression:
[0446] Expression of the Anti-VEGF scFv His AAs was conducted in a
K12 TB1 strain of E. coli An ampicillin-resistant colony containing
the desired construct was used to inoculate a 5 ml overnight
culture containing LB medium supplemented with 50 .mu.g/mL
Ampicillin. 2.5 ml of overnight culture was used to inoculate 250
mL of fresh LB medium supplemented with 50 .mu.g/mL ampicillin and
0.2% Glucose and allowed to grow at 37.degree. C. shaking at 250
rpm until an O.D. of 1.0 was reached.
Isopropylthio-.beta.-D-galactosidase was then added to a final
concentration of 0.3 mM and the culture was allowed to grow for a
further 5 hrs at 30.degree. C. after which the cells were harvested
by centrifugation at 3000.times.g. The periplasmic fraction was
immediately purified using the lysozyme/osmotic shock method.
Briefly, the cell pellet was resuspended in 3 mLs of 50 mM Tris,
200 mM NaCl, 10 mM EDTA, 20% Sucrose, pH 7.4 and 2 uL/mL ready-use
lysozyme solution was added. After a 15 min. incubation on ice, 1.5
volumes of water (4.5 mLs) was added and the cells were incubated
for another 15 min. on ice. The soluble periplasmic fraction was
recovered by centrifugation at 14,000.times.g.
[0447] The Anti-VEGF scFv His proteins were partially purified
using Ni-NTA resin. Crude periplasmic extracts were loaded onto 0.5
ml of Ni-NTA resin and washed with 50 mM phosphate, 300 mM NaCl, pH
7.4. His tagged proteins were eluted with 50 mM phosphate, 300 mM
NaCl, 200 mM Imidizale, pH 6.0. Proteins were concentrated to
approximately 600 .mu.L and buffer exchanged into PBS using Amicon
Ultra centrifugal concentrators.
Cloning and Expression of the AA: a MMP-9 Cleavable, Masked
Anti-VEGF scFv as Human Fc Fusion
[0448] Cloning:
[0449] The primers CX0312 and CX0314 (Table 10) were used to
amplify the sequence encoding MMP-9 CM/Anti-VEGF scFv. The primers
also included sequences for a 5' EcoRI restriction site and a 3'
NcoI restriction site and linker sequence. Cutting the PCR
amplified sequence with EcoRI and NcoI and subsequent cloning into
the pFUSE-hIgG1-Fc2 vector generated vectors for the expression of
Fc fusion proteins. Anti-VEGF scFv AB MMs were inserted into these
vectors as previously described. Constructs containing 306MM,
313MM, 314MM, 315MM, a non-binding MM (100MM), as well as no MM
were constructed and sequences verified. The corresponding
nucleotide and amino acid sequences are provided below in Table
14.
TABLE-US-00018 TABLE 14 306 MM/MMP-9 CM /anti-VEGF scFv-Fc AB
sequences 306 MM/MMP-9 CM /anti-VEGF scFv-Fc AB nucleotide sequence
(SEQ ID NO: 79)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaa
ggtggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttc-
ttccctgagtgcc
agcgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagca-
gaagccaggaaag
gcaccaaaagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcag-
tggtaccgacttc
accctgactatctcgagtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtg-
gacgttcgggcag
ggcaccaaagtggagattaaggggggtggaggcagcgggggaggtggctcaggcggtggagggtctggcgaggt-
ccagctggtagaa
agcgggggcggactggtccaaccgggcggatccctgcgtctgagctgcgcggcctcgggttacgactttactca-
ctacggaatgaac
tgggttcgccaagcccctggtaaaggtctggaatgggtcggatggattaatacatacactggagaacctactta-
tgctgctgatttc
aaacgtcgctttactttctctctggatacaagtaagtcaaccgcctatctgcaaatgaacagcctgcgtgcaga-
ggacacggctgtg
tactattgtgcgaaatatccttattattatggaacttcccactggtatttcgatgtatggggccagggtactct-
ggttacagtgtcg
ggcggtagcggcgccatggttagatctgacaaaactcacacatgcccaccgtgcccagcacctgaactcctggg-
gggaccgtcagtc
ttcctcttccccccaaaacccaaggacaccctcatgatctcccggacccctgaggtcacatgcgtggtggtgga-
cgtgagccacgaa
gaccctgaggtcaagttcaactggtacgtggacggcgtggaggtgcataatgccaagacaaagccgcgggagga-
gcagtacaacagc
acgtaccgtgtggtcagcgtcctcaccgtcctgcaccaggactggctgaatggcaaggagtacaagtgcaaggt-
ctccaacaaagcc
ctcccagcccccatcgagaaaaccatctccaaagccaaagggcagccccgagaaccacaggtgtacaccctgcc-
cccatcccgggag
gagatgaccaagaaccaggtcagcctgacctgcctggtcaaaggcttctatcccagcgacatcgccgtggagtg-
ggagagcaatggg
cagccggagaacaactacaagaccacgcctcccgtgctggactccgacggctccttcttcctctacagcaagct-
caccgtggacaag
agcaggtggcagcaggggaacgtcttctcatgctccgtgatgcatgagggtctgcacaaccactacacgcagaa-
gagcctctccctg tctccgggtaaa 306 MM/MMP-9 CM/anti-VEGF scFv-Fc AB
amino acid sequence (SEQ ID NO: 80)
GQSGQPCSEWQSMVQPRCYYGGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSASVGDRVTITCSASQDI-
SNYLNWYQQKPGK
APKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGGSGGGG-
SGGGGSGEVQLVE
SGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRFTFSLDTSKSTAY-
LQMNSLRAEDTAV
YYCAKYPYYYGTSHWYFDVWGQGTLVTVSGGSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRT-
PEVTCVVVDVSHE
DPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQP-
REPQVYTLPPSRE
EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHE-
GLHNHYTQKSLSL SPGK 314 MM/MMP-9 CM/anti-VEGF scFv-Fc AB nucleotide
sequence (SEQ ID NO: 81)
ggccagtctggccagcggccgccgtgttgccgtgattatagtattttggagtgctgtaagagtgatggcggttc-
tggtggcagcggc
caaggtggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagccc-
ttcttccctgagt
gccagcgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtacca-
gcagaagccagga
aaggcaccaaaagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctgg-
cagtggtaccgac
ttcaccctgactatctcgagtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgcc-
gtggacgttcggg
cagggcaccaaagtggagattaaggggggtggaggcagcgggggaggtggctcaggcggtggagggtctggcga-
ggtccagctggta
gaaagcgggggcggactggtccaaccgggcggatccctgcgtctgagctgcgcggcctcgggttacgactttac-
tcactacggaatg
aactgggttcgccaagcccctggtaaaggtctggaatgggtcggatggattaatacatacactggagaacctac-
ttatgctgctgat
ttcaaacgtcgctttactttctctctggatacaagtaagtcaaccgcctatctgcaaatgaacagcctgcgtgc-
agaggacacggct
gtgtactattgtgcgaaatatccttattattatggaacttcccactggtatttcgatgtatggggccagggtac-
tctggttacagtg
tcgggcggtagcggcgccatggttagatctgacaaaactcacacatgcccaccgtgcccagcacctgaactcct-
ggggggaccgtca
gtcttcctcttccccccaaaacccaaggacaccctcatgatctcccggacccctgaggtcacatgcgtggtggt-
ggacgtgagccac
gaagaccctgaggtcaagttcaactggtacgtggacggcgtggaggtgcataatgccaagacaaagccgcggga-
ggagcagtacaac
agcacgtaccgtgtggtcagcgtcctcaccgtcctgcaccaggactggctgaatggcaaggagtacaagtgcaa-
ggtctccaacaaa
gccctcccagcccccatcgagaaaaccatctccaaagccaaagggcagccccgagaaccacaggtgtacaccct-
gcccccatcccgg
gaggagatgaccaagaaccaggtcagcctgacctgcctggtcaaaggcttctatcccagcgacatcgccgtgga-
gtgggagagcaat
gggcagccggagaacaactacaagaccacgcctcccgtgctggactccgacggctccttcttcctctacagcaa-
gctcaccgtggac
aagagcaggtggcagcaggggaacgtcttctcatgctccgtgatgcatgagggtctgcacaaccactacacgca-
gaagagcctctcc ctgtctccgggtaaa 314 MM/MMP-9 CM/anti-VEGF scFv-Fc AB
amino acid sequence (SEQ ID NO: 82) GQ
SGQRPPCCRDYSILECCKSDGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSASVGDRVTITCSASQ-
DISNYLNWYQQKP
GKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGGSGG-
GGSGGGGSGEVQL
VESGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRFTFSLDTSKST-
AYLQMNSLRAEDT
AVYYCAKYPYYYGTSHWYFDVWGQGTLVTVSGGSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMIS-
RTPEVTCVVVDVS
HEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKG-
QPREPQVYTLPPS
REEMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVM-
HEGLHNHYTQKSL SLSPGK
[0450] Expression:
[0451] 10 .mu.g of expression vectors for 306 MM/MMP-9
CM/anti-VEGFscFv-Fc, 314 MM/MMP-9 CM/anti-VEGFscFv-Fc or
anti-VEGFscFv-Fc were introduced into 10.sup.7 HEK-293 freestyle
cells (Invitrogen, CA) by transfection using transfectamine 2000 as
per manufacturer's protocol (Invitrogen, CA). The transfected cells
were incubated for an additional 72 hours. After incubation, the
conditioned media was harvested and cleared of cells and debris by
centrifugation. The conditioned media was assayed for activity by
ELISA.
Example 8
Measurement of the Activation of a Masked MMP-9 Cleavable AA
[0452] To measure the activation of the masked MMP-9 cleavable
anti-VEGF AAs by MMP-9, 100 ul of a 2 .mu.g/ml PBS solution of VEGF
was added to microwells (96 Well Easy Wash; Corning) and incubated
overnight at 4.degree. C. Wells were then blocked for 3.times.15
minute with 300 uL Superblock (Pierce). One hundred microliters of
an AA (see below for details pertaining to each construct), treated
or untreated with MMP-9, were then added to wells in PBST, 10%
Superblock and incubated at room temperature (RT) for 1 hr. All
wash steps were done three times and performed with 300 ul PBST.
One hundred microliters of secondary detection reagent were then
added and allowed to incubate at RT for 1 hr. Detection of HRP was
completed using 100 ul of TMB one (Pierce) solution. The reaction
was stopped with 100 .mu.L of 1N HCL and the absorbance was
measured at 450 nM.
ELISA Assay of an AA Construct Containing: MBP/MM/MMP-9
CM/Anti-VEGF scFv AB
[0453] Two hundred microliters of biotinylated AA in MMP-9
digestion buffer (50 mM Tris, 2 mM CaCl.sub.2, 20 mM NaCl, 100
.mu.M ZnCl.sub.2, pH 6.8) at a concentration of 200 nM was digested
with 20U TEV protease overnight at 4.degree. C. to remove the MBP
fusion partner. Samples were then incubated for 3 hrs with or
without .about.3U of MMP-9 at 37.degree. C., diluted 1:1 to a final
concentration of 100 nM in PBST, 10% Superblock, and added to the
ELISA wells. Detection of the AA was achieved with an Avidin-HRP
conjugate at a dilution of 1:7500. MMP-9 activation of MMP-9
cleavable masked MBP:anti-VEGF scFv AA is presented in FIG. 5.
ELISA Assay of an AA Construct Containing: MM/MMP-9 CM/Anti-VEGF
scFv His
[0454] Crude periplasmic extracts dialyzed in MMP-9 digestion
buffer (150 .mu.L) were incubated with or without .about.3U of
MMP-9 for 3 hrs at 37.degree. C. Samples were then diluted to 400
.mu.L with PBST, 10% Superblock and added to the ELISA wells.
Detection of the AA was achieved using an Anti-His6 (SEQ ID NO:
48)--HRP conjugate at a dilution of 1:5000. MMP-9 activation of
MMP-9 cleavable masked anti-VEGF scFv His AA is presented in FIG.
6.
ELISA Assay of an AA Construct Containing: MM/MMP-9 CM/Anti-VEGF
scFv-Fc
[0455] Fifty microliters of HEK cell supernatant was added to 200
.mu.L MMP-9 digestion buffer and incubated with or without
.about.19U MMP-9 for 2 hrs at 37.degree. C. Samples were then
diluted 1:1 in PBST, 10% Superblock and 100 .mu.L were added to the
ELISA wells. Detection of the AA was achieved using Anti-human
Fc-HRP conjugate at a dilution of 1:2500. MMP-9 activation of MMP-9
cleavable masked anti-VEGF scFv-Fc is presented in FIG. 7.
Purification and Assay of an AA Construct Containing: MM/MMP-9
CM/Anti-VEGF scFv-Fc
[0456] Anti-VEGF scFv Fc AAs were purified using a Protein A column
chromatography. Briefly, 10 mLs of HEK cell supernatants were
diluted 1:1 with PBS and added to 0.5 mL Protein A resin
pre-equilibrated in PBS. Columns were washed with 10 column volumes
of PBS before eluting bound protein with 170 mM acetate, 300 mL
NaCl pH. 2.5 and immediately neutralized 1 mL fractions with 200
.mu.L of 2 M Tris pH 8.0. Fractions containing protein were then
concentrated using Amicon Ultra centrifugal concentrators. ELISA
was conducted as with HEK cell supernatants. ELISA data showing the
MMP-9 dependent VEGF binding of Anti-VEGFscFv Fc AA constructs with
the MMs 306 and 314 that were purified using a Protein A column are
presented in FIG. 8.
Example 9
Target Displacement Assay for the Discovery and Validation of
Efficiently Masked Therapeutic Proteins
[0457] VEGF was adsorbed to the wells of a 96-well micro-titer
plate, washed and blocked with milk protein. 25 ml of culture media
containing anti-VEGF antibody or anti-VEGF AA's containing the MM
JS306, was added to the coated wells and incubated for 1, 2, 4, 8
or 24 hours. Following incubation, the wells were washed and the
extent of bound AA's was measured by anti-huIgG immunodetection.
FIG. 9 shows mask 306 can completely inhibit binding to VEGF at one
hour; however, at 16 hours, >50% of the 306-antiVEGF AA is bound
to its antigen, VEGF. The 306 mask, which binds to anti-VEGF
antibody with an affinity of >600 nM, does not efficiently
preclude binding to VEGF.
Example 10
Library Screening and Isolation of Anti-CTLA4 MMs
[0458] CTLA4 antibody masking moieties (MMs) were isolated from a
combinatorial library of 10.sup.10 random 15mer peptides displayed
on the surface of E. coli according to the method of Bessette et al
(Bessette, P. H., Rice, J. J and Daugherty, P. S. Rapid isolation
of high-affinity protein binding peptides using bacterial display.
Protein Eng. Design & Selection. 17:10,731-739, 2004).
Biotinylated mouse anti-CTLA4 antibody (clone UC4 F10-11, 25 nM)
was incubated with the library and antibody-bound bacteria
expressing putative binding peptides were magnetically sorted from
non-binders using streptavidin-coated magnetic nanobeads.
Subsequent rounds of enrichment were carried out using FACS. For
the initial round of FACS, bacteria were sorted using biotinylated
target (5 nM) and secondary labeling step with streptavidin
phycoerythrin. In subsequent rounds of FACS, sorting was performed
with Dylight labeled antibody and the concentration of target was
reduced (1 nM, then 0.1 nM) to avoid the avidity effects of the
secondary labeling step and select for the highest affinity
binders. One round of MACS and three rounds of FACS resulted in a
pool of binders from which individual clones were sequenced.
Relative affinity and off-rate screening of individual clones were
performed using a ficin digested Dylight-labeled Fab antibody
fragment to reduce avidity effects of the bivalent antibody due to
the expression of multiple peptides on the bacterial surface. As an
additional test of target specificity, individual clones were
screened for binding in the presence of 20 uM E. Coli depleted IgG
as a competitor. Amino acid and nucleotide sequences of the 4
clones chosen for MM optimization are shown in Table 15. These
sequences will interchangeably referred to as 115MM, 184MM, 182MM,
and 175MM. MM candidates with a range of off-rates were chosen, to
determine the effects of off-rates on MM dissociation after
cleavage. An MM that did not bind anti-CTLA4 was used as a negative
control.
TABLE-US-00019 TABLE 15 Amino acid and nucleotide sequences for MMs
that mask anti-CTLA4 KK115 MM M I L L C A A G R T W V E A C A N G R
(SEQ ID NO: 84) ATGATTTTGTTGTGCGCGGCGGGTCGGACGTGGGTGGAGGCTTGCGCTAA
TGGTAGG (SEQ ID NO: 83) KK184 MM A E R L C A W A G R F C G S (SEQ
ID NO: 86) GCTGAGCGGTTGTGCGCGTGGGCGGGGCGGTTCTGTGGCAGC (SEQ ID NO:
85) KK182 MM W A S V M P G S G V L P W T S (SEQ ID NO: 88)
TGGGCGGATGTTATGCCTGGGTCGGGTGTGTTGCCGTGGACGTCG (SEQ ID NO: 87) KK175
MM S D G R M G S L E L S A L W G R F C G S (SEQ ID NO: 90)
AGTGATGGTCGTATGGGGAGTTTGGAGCTTTGTGCGTTGTGGGGGCGGTTCTGTGGCAGC (SEQ
ID MO: 89) Negative control (does not bind anti-CTLA4) P C S E W Q
S M V A P R C Y Y (SEQ ID NO: 92)
CCGTGTTCTGAGTGGCAGTCGATGGTGCAGCCGCGTTGCTATTAT (SEQ ID NO: 91)
Example 11
Cloning of Anti-CTLA4 scFv
[0459] Anti-CTLA4 ScFv was cloned from the HB304 hybridoma cell
line (American Type Culture Collection) secreting UC4F10-11 hamster
anti-mouse CTLA4 antibody according to the method of Gilliland et
al. (Gilliland L. K., N. A. Norris, H. Marquardt, T. T. Tsu, M. S.
Hayden, M. G. Neubauer, D. E. Yelton, R. S. Mittler, and J. A.
Ledbetter. Rapid and reliable cloning of antibody variable regions
and generation of recombinant single chain antibody fragments.
Tissue Antigens 47:1, 1-20, 1996). A detailed version of this
protocol can be found at the Institute of Biomedical Sciences
(IBMS) at Academia Sinica in Taipei, Taiwan website. In brief,
total RNA was isolated from hybridomas using the RNeasy total RNA
isolation kit (Qiagen). The primers IgK1 (gtyttrtgngtnacytcrca (SEQ
ID NO: 93)) and IgH1 (acdatyttyttrtcnacyttngt (SEQ ID NO: 94))
(Gilliland et al. referenced above) were used for first strand
synthesis of the variable light and heavy chains, respectively. A
poly G tail was added with terminal transferase, followed by PCR
using the 5' ANCTAIL primer (Gilliland et al. referenced above)
(cgtcgatgagctctagaattcgcatgtgcaagtccgatggtcccccccccccccc (SEQ ID
NO: 95)) containing EcoRI, Sad and XbaI sites for both light and
heavy chains (poly G tail specific) and the 3' HBS-hIgK
(cgtcatgtcgacggatccaagcttacyttccayttnacrttdatrtc (SEQ ID NO: 96))
and HBS-hIgH (cgtcatgtcgacggatccaagcttrcangcnggngcnarnggrtanac (SEQ
ID NO: 97)) derived from mouse antibody constant region sequences
and containing HindIII, BamHI and SalI sites for light and heavy
chain amplification, respectively (Gilliland et al. referenced
above). Constructs and vector were digested with HindIII and Sad,
ligated and transformed into E. Coli. Individual colonies were
sequenced and the correct sequences for V.sub.L and V.sub.H (Tables
16 and 17 respectively) were confirmed by comparison with existing
mouse and hamster antibodies. The leader sequences, as described
for anti-CTLA4 in the presented sequence is also commonly called a
signal sequence or secretion leader sequence and is the amino acid
sequence that directs secretion of the antibody. This sequence is
cleaved off, by the cell, during secretion and is not included in
the mature protein. Additionally, the same scFv cloned by Tuve et
al (Tuve, S. Chen, B. M., Liu, Y., Cheng, T-L., Toure, P., Sow, P.
S., Feng, Q., Kiviat, N., Strauss, R., Ni, S., Li, Z., Roffler, S.
R. and Lieber, A. Combination of Tumor Site-Located CTL-Associated
Antigen-4 Blockade and Systemic Regulatory T-Cell Depletion Induces
Tumor Destructive Immune Responses. Cancer Res. 67:12, 5929-5939,
2007) was identical to sequences presented here.
TABLE-US-00020 TABLE 16 Hamster anti-mouse CTLA4 V.sub.L Leader M E
S H I H V F M S L F L W V S G S C A D I M M T Q S P S S L S V S A G
E K A T I S C K S S Q S L F N S N A K T N Y L N W Y L Q K P G Q S P
K L L I Y Y A S T R H T G V P D R F R G S G T D F T L T I S S V Q D
E D L A F Y Y C Q Q W Y D Y P Y T F G A G T K V E I K (SEQ ID NO:
98)
atggaatcacatatccatgtcttcatgtccttgttcctttgggtgtctggttcctgtgcagacatcatgatgac-
ccagtctccttcatccctga
gtgtgtcagcgggagagaaagccactatcagctgcaagtccagtcagagtcttttcaacagtaacgccaaaacg-
aactacttgaactgg
tatttgcagaaaccagggcagtctcctaaactgctgatctattatgcatccactaggcatactggggtccctga-
tcgcttcagaggcagtg
gatctgggacggatttcactctcaccatcagcagtgtccaggatgaagacctggcattttattactgtcagcag-
tggtatgactacccata cacgttcggagctgggaccaaggtggaaatcaaa (SEQ ID NO:
99)
TABLE-US-00021 TABLE 17 Hamster anti mouse CTLA4 V.sub.H Leader K M
R L L G L L Y L V T A L P G V L S Q I Q L Q E S G P G L V N P S Q S
L S L S C S V T G Y S I T S G Y G W N W I R Q F P G Q K V E W M G F
I Y Y E G S T Y Y N P S I K S R I S I T R D T S K N Q F F L Q V N S
V T T E D T A T Y Y C A R Q T G Y F D Y W G Q G T M V T V S S (SEQ
ID NO: 100)
aagatgagactgttgggtcttctgtacctggtgacagcccttcctggtgtcctgtcccagatccagcttcagga-
gtcaggacctggcctggt
gaacccctcacaatcactgtccctctcttgctctgtcactggttactccatcaccagtggttatggatggaact-
ggatcaggcagttcccag
ggcagaaggtggagtggatgggattcatatattatgagggtagcacctactacaacccttccatcaagagccgc-
atctccatcaccagag
acacatcgaagaaccagttcttcctgcaggtgaattctgtgaccactgaggacacagccacatattactgtgcg-
agacaaactgggtact ttgattactggggccaaggaaccatggtcaccgtctcctca (SEQ ID
NO: 101)
Example 12
Construction of the Anti-CTLA4 scFv with MMs and CMs
[0460] To determine the optimal orientation of the anti-CTLA4 scFv
for expression and function, primers were designed to PCR amplify
the variable light and heavy chains individually, with half of a
(GGGS).sub.3 linker (SEQ ID NO: 102) at either the N- or C-terminus
for a subsequent `splicing by overlapping extension` PCR (SOE-PCR;
Horton, R. M., Hunt, H. D., Ho, S. N., Pullen, J. K. and Pease, L.
R. (1989) Engineering hybrid genes without the use of restriction
enzymes: gene splicing by overlap extension. Gene 77, 61-68) with
either V.sub.H or V.sub.L at the N-terminus. An NdeI restriction
site was engineered at the N-terminus to generate a start codon in
frame at the beginning of the nucleotide sequence and a His tag and
stop codon were added to the C-terminus. Light and heavy chains
were then joined via sewing PCR using the outer primers to generate
ScFvs in both V.sub.HV.sub.L and V.sub.LV.sub.H (FIG. 10). Primers
are shown below in Table 18.
TABLE-US-00022 TABLE 18 Primers to generate scFvs V.sub.HV.sub.L
and V.sub.LV.sub.H VL for1 caaggaccatagcatatggacatcatgatgacccagtct
(SEQ ID NO: 103) VL linker
acttccgcctccacctgatccaccaccacctttgatttccaccttggtcc rev1 (SEQ ID NO:
104) linker VH
ggatcaggtggaggcggaagtggaggtggcggttcccagatccagcttcaggagtcagga for2
(SEQ ID NO: 105) VH his rev2
ggccggatccaagcttttagtggtgatggtgatgatgtgaggagacggtgaccatggttcc (SEQ
ID NO: 106) VH for3 acaaggaccatagcatatgcagatccagcttcaggagtca (SEQ
ID NO: 107) VH linker
acttccgcctccacctgatccaccaccacctgaggagacggtgaccatggttcc rev3 (SEQ ID
NO: 108) linker VL
ggtggatcaggtggaggcggaagtggaggtggcggttccgacatcatgatgacccagtctcct
for4 (SEQ ID NO: 109) VL his rev4
cggccggatccaagcttttagtggtgatggtgatgatgtttgatttccaccttggtcccagc (SEQ
ID NO: 110)
[0461] Next, a set of overlapping primers were designed to add sfi
and xho1 sites for MM cloning followed by the MMP-9 cleavage
sequence and (GGS).sub.2 linker (SEQ ID NO: 111) on the N-terminus
of the ScFv constructs. These primers are presented in Table 19 and
shown schematically in FIG. 10.
TABLE-US-00023 TABLE 19 Primers MM and CM cloning for 1c
gccagtctggccggtagggctcgagcggccaagtgcacatgccactgggcttcctgggtc linker
(SEQ ID NO: 112) for 1d
gccactgggcttcctgggtccgggtggaagcggcggctcagacatcatgatgacccagtc linker
VL (SEQ ID NO: 113) for 1e
gccactgggcttcctgggtccgggtggaagcggcggctcacagatccagcttcaggagtca
linker VH (SEQ ID NO: 114) for 1a
ttcaccaacaaggaccatagcatatgggccagtctggccggtagggc (SEQ ID NO: 115) VH
his ggccggatccaagcttttagtggtgatggtgatgatgtgaggagacggtgaccatggttcc
rev2 (SEQ ID NO: 116) VH linker
acttccgcctccacctgatccaccaccacctgaggagacggtgaccatggttcc rev3 (SEQ ID
NO: 117)
[0462] Linker containing ScFvs were PCR amplified, digested with
Nde1 and EcoR1 (an internal restriction site in V.sub.H) and gel
purified. The PCR fragments were ligated into the vectors and
transformed into E. coli The nucleotide and amino acid sequences
are presented in Table 20.
TABLE-US-00024 TABLE 20 Sequence of MM linker-CM-anti-CTLA4 scFv
linker Amino acid sequence: (-------MM
Linker-------)(---------------------CM-------------------)(---s-
cFv Linker---) G G S G G S G G S S G Q V H M P L G F L G P G G S G
G S (SEQ ID NO: 118) Nucleotide sequence:
GGCGGTTCTGGTGGCAGCGGTGGCTCGAGCGGCCAAGTGCACATGCCACTGGGCTT
CCTGGGTCCGGGTGGAAGCGGCGGCTCA (SEQ ID NO: 119)
[0463] MM sequences were PCR amplified, digested at sfi1 and xho1
sites, ligated into linker anti-CTLA4 scFv constructs, transformed
into E. Coli and sequenced. The complete nucleotide and amino acid
sequences of the MM115-CM-AB are shown below in Tables 21 and 22
respectively.
TABLE-US-00025 TABLE 21 Amino acid sequence of MM115-anti-CTLA4
ScFv AB M I L L C A A G R T W V E A C A N G R G G S G G S G G S S G
Q V H M P L G F L G P G G S G G S Q I Q L Q E S G P G L V N P S Q S
L S L S C S V T G Y S I T S G Y G W N W I R Q F P G Q K V E W M G F
I Y Y E G S T Y Y N P S I K S R I S I T R D T S K N Q F F L Q V N S
V T T E D T A T Y Y C A R Q T G Y F D Y W G Q G T M V T V S S G G G
G S G G G G S G G G G S D I M M T Q S P S S L S V S A G E K A T I S
C K S S Q S L F N S N A K T N Y L N W Y L Q K P G Q S P K L L I Y Y
A S T R H T G V P D R F R G S G S G T D F T L T I S S V Q D E D L A
F Y Y C Q Q W Y D Y P Y T F G A G T K V E I K (SEQ ID NO: 120)
TABLE-US-00026 TABLE 22 Nucleotide sequence of MM115-anti-CTLA4
ScFv AB
atgattttgttgtgcgcggcgggtcggacgtgggtggaggcttgcgctaatggtaggggcggttctggtggcag-
cggtggctcgagcggc
caagtgcacatgccactgggcttcctgggtccgggtggaagcggcggctcacagatccagcttcaggagtcagg-
acctggcctggtgaa
cccctcacaatcactgtccctctcttgctctgtcactggttactccatcaccagtggttatggatggaactgga-
tcaggcagttcccagggcag
aaggtggagtggatgggattcatatattatgagggtagcacctactacaacccttccatcaagagccgcatctc-
catcaccagagacacatc
gaagaaccagttcttcctgcaggtgaattctgtgaccactgaggacacagccacatattactgtgcgagacaaa-
ctgggtactttgattactg
gggccaaggaaccatggtcaccgtctcctcaggtggtggtggatcaggtggaggcggaagtggaggtggcggtt-
ccgacatcatgatga
cccagtctccttcatccctgagtgtgtcagcgggagagaaagccactatcagctgcaagtccagtcagagtctt-
ttcaacagtaacgccaaa
acgaactacttgaactggtatttgcagaaaccagggcagtctcctaaactgctgatctattatgcatccactag-
gcatactggggtccctgatc
gcttcagaggcagtggatctgggacggatttcactctcaccatcagcagtgtccaggatgaagacctggcattt-
tattactgtcagcagtggt
atgactacccatacacgttcggagctgggaccaaggtggaaatcaaacatcatcaccatcaccactaa
(SEQ ID NO: 121)
[0464] To generate MM-CM-anti-CTLA4 scFv-Fc fusions, the following
primers listed in Table 23 were designed to PCR amplify the
constructs for cloning into the pfuse Fc vector via the in fusion
system (Clontech). Plasmids were transformed into E. coli, and the
sequence of individual clones was verified.
TABLE-US-00027 TABLE 23 Primers to generate MM-CM-anti-CTLA4
scFv-Fc fusions HLCTLA4ScFv pFuse reverse
tcagatctaaccatggctttgatttccaccttggtcc (SEQ ID NO: 122) LHCTLA4ScFv
pFuse reverse tcagatctaaccatggctgaggagacggtgaccatgg (SEQ ID NO:
123) p115CTLA4 pfuse forward cacttgtcacgaattcgatgattttgttgtgcgcggc
(SEQ ID NO: 124) p182CTLA4 pfuse forward
cacttgtcacgaattcgtgggcggatgttatgcctg (SEQ ID NO: 125) p184CTLA4
pfuse forward cacttgtcacgaattcggctgagcggttgtgcgcgtg (SEQ ID NO:
126) p175CTLA4 pfuse forward cacttgtcacgaattcgagtgatggtcgtatggggag
(SEQ ID NO: 127) pnegCTLA4 pfuse forward
cacttgtcacgaattcgccgtgttctgagtggcagtcg (SEQ ID NO: 128)
Example 13
Expression and Assay of Masked/MMP-9/anti-CTLA4 scFv-Fc in HEK-293
Cells
[0465] 10 ug of expression vectors for p175CTLA4pfuse,
p182CTLA4pfuse, p184CTLA4pfuse, p115CTLA4pfuse, or pnegCTLA4pfuse
were introduced into 10.sup.7 HEK-293 freestyle cells (Invitrogen)
by transfection using transfectamine 2000 as per manufacturer's
protocol (Invitrogen). The transfected cells were incubated for an
additional 72 hours. After incubation the conditioned media was
harvested and cleared of cells and debris by centrifugation. The
conditioned media was assayed for activity by ELISA as described
below.
[0466] Fifty microliters of conditioned media from HEK-293
expressing MM175-anti-CTLA4 scFv, MM182-anti-CTLA4 scFv,
MM184-anti-CTLA4 scFv, MM115-anti-CTLA4 scFv, or MMneg-anti-CTLA4
scFv was added to 200 .mu.L MMP-9 digestion buffer and incubated
with or without .about.19U MMP-9 for 2 hrs at 37.degree. C. Samples
were then diluted 1:1 in PBS, 4% non fat dry milk (NFDM) and
assayed for binding activity by competition ELISA.
[0467] 100 ul of 0.5 mg/ml solution of murine CTLA4-Fc fusion
protein (R & D systems) in PBS was added to wells of 96 well
Easy Wash plate (Corning) and incubated overnight at 4.degree. C.
Wells were then blocked for one hour at room temperature (RT) with
100 ul of 2% non-fat dry milk (NFDM) in PBS and then washed
3.times. with PBS; 0.05% Tween-20 (PBST). 50 ul of conditioned
media from cultures of transfected HEK-293 cells expressing
MM175-anti-CTLA4 scFv, MM182-anti-CTLA4 scFv, MM184-anti-CTLA4
scFv, MM115-anti-CTLA4 scFv, or MMneg-anti-CTLA4 scFv that had
previously been untreated or treated with MMP-9, were added to
wells and incubated RT for 15 minutes. Following incubation, 50 ul
of PBS containing 0.5 ug/ml biotinylated murine B71-Fc (R & D
systems) was added to each well. Following a further incubation at
RT of 30 minutes the wells were washed 5.times. with 150 ul PBST.
100 ul of PBS containing 1:3000 dilution of avidin-HRP was added
and the plate incubated at RT for 45 minutes and then washed
7.times. with 150 ul PBST. The ELISA was developed with 100 ul of
TMB (Pierce), stopped with 100 uL of 1N HCL and the absorbance was
measured at 450 nM.
Example 14
Construction of an Anti-CTLA4
[0468] Tables 24 and 25 display nucleotide and amino acid sequences
for anti-human CTLA-4 scFv, respectively. M13 bacteriophage capable
of binding human CTLA were supplied (under contract, by Creative
Biolabs, 21 Brookhaven Blvd., Port Jefferson Station, N.Y. 11776).
Phage were produced in E. coli TG-1 and purified by PEG;NaCl
precipitation.
TABLE-US-00028 TABLE 24 anti-human CTLA4 scFv AB nucleotide
sequence
gaaattgtgttgacacagtctccaggcaccctgtctttgtctccaggggaaagagccaccctctcctgcagggc-
cagtcagagtgttagcag
cagctacttagcctggtaccagcagaaacctggccaggctcccaggctcctcatctatggtgcatccagcaggg-
ccactggcatcccagac
aggttcagtggcagtgggtctgggacagacttcactctcaccatcagcagactggagcctgaagattttgcagt-
gtattactgtcagcagtat
ggtagctcaccgctcactttcggcggagggaccaaggtggaaatcaaacgttccggagggtcgaccataacttc-
gtataatgtatactatac
gaagttatcctcgagcggtacccaggtgcagctggtgcagactgggggaggcgtggtccagcctgggaggtccc-
tgagactctcctgtgc
agcctctggatccacctttagcagctatgccatgagctgggtccgccaggctccagggaaggggctggagtggg-
tctcagctattagtggt
agtggtggtagcacatactacgcagactccgtgaagggccggttcaccatctccagagacaattccaagaacac-
gctgtatctgcaaatga
acagcctgagagccgaggacacggccgtatattactgtgcgacaaactccctttactggtacttcgatctctgg-
ggccgtggcaccctggtc actgtctcttcagctagc (SEQ ID NO: 129)
TABLE-US-00029 TABLE 25 anti-human CTLA4 scFv AB amino acid
sequence
EIVLTQSPGTLSLSPGERATLSCRASQSVSSSYLAWYQQKPGQAPRLLIYGASSRATGIPD
RFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSSPLTFGGGGTKVEIKRSGGSTITSYNVY
YTKLSSSGTQVQLVQTGGGVVQPGRSLRLSCAASGSTFSSYAMSWVRQAPGKGLEWVS
AIAGSGGSTYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCATNSLYWYFDL
WGRGTLVTVSSAS (SEQ ID NO: 130)
[0469] Phage ELISA Measurement of CTLA-4 Binding:
[0470] To measure the binding of anti-CTLA-4 scFv-C2, 100 ul of a
0.5 ug/ml Human CTLA-4-IgG or murine CTLA-4-IgG (R&D Systems)
in PBS was added to microwells (96 Well Easy Wash; Corning) and
incubated overnight at 4.degree. C. Wells were then blocked for 1
hour at room temperature (RT) with 150 ul of 2% non-fat dry milk
(NFDM) in PBST (PBS, pH 7.4, 0.5% Tween-20). The wells were then
washed 3.times. with 300 ul PBST. Following washing 100 ul of
purified anti-CTLA-4 scFv phage in PBST were added to triplicate
wells and incubated RT for 1 hr. The wells were then washed
3.times. with 300 ul PBST. One hundred microliters of anti-M13
HRP-conjugated antibody was then added and incubated at RT for 1
hr. Detection of HRP was completed using 100 ul of TMB one (Pierce)
solution. The reaction was stopped 100 ul of 1N HCL and the
absorbance was measured at 450 nM. FIG. 19 shows the binding of
anti-CTLA4 scFv to both murine and human CTLA4.
[0471] AAs Comprising an IgG as the AB
[0472] Examples of AAs comprising an anti-EGFR and anti-VEGF in the
human IgG are described in the following sections. These AAs are
masked and inactive under normal conditions. When the AAs reach the
diseased tissue, they are cleaved by a disease-specific protease
and can then bind their target. Bacterial display is used to
discover suitable MMs for the anti-EGFR and anti-VEGF antibodies.
In, these examples, selected MMs are combined with an enzyme
substrate to be used as a trigger to create AAs that become
competent for specific binding to target following protease
activation. Furthermore, bacterial display is used to alter the
discovered peptides to increase affinity for the ABs and enhance
the inhibition of targeted binding in the un-cleaved state. The,
increased MM affinity and enhanced inhibition is important for
appropriate AA function.
Example 15
Construction of an Anti-VEGF IgG AA
Construction of the Anti-VEGF IgG Antibody
[0473] The anti-VEGF light chain variable region was PCR amplified
with primers CX0311 and CX0702 using the anti-VEGF mmp-9 306 scFv
(described above) as template and then cloned into the pFIL2-CL-hk
vector using the EcoRI and BsiWI restriction sites (pFIL2-VEGF-Lc).
The 306 mmp-9 light chain was PCR amplified with primers CX0325 and
CX0702 using the anti-VEGF mmp-9 scFv as template and cloned as
above (pFIL2-306 mVEGF-Lc). The anti-VEGF heavy chain variable
regions were PCR amplified using primers CX0700 and CX0701 using
the 306 MM/MMP-9 CM/anti-VEGFscFv (described above) as template and
cloned into the pFIL-CHIg-hG1 vector using the EcoRI and NheI
restriction sites (pFIL-VEGF-Hc). The primers are provided below in
Table 26.
TABLE-US-00030 TABLE 26 Primers for Construction of an anti-VEGF
IgG antibody CX0311 cttgtcacgaattcggatattcaactgacccagagc (SEQ ID
NO: 131) CX0702 gtgcagccaccgtacgcttaatctccactttggtg (SEQ ID NO:
132) CX0325 tgcttgctcaactctacgtc (SEQ ID NO: 133) CX0289
gctttcaccgcaggtacttccgtagctggccagtctggcc (SEQ ID NO: 134) CX0687
cgctccatgggccaccttggccgctgccaccgctcgagcc (SEQ ID NO: 135) CX0700
cacttgtcacgaattcggaggtccagctggtagaaag (SEQ ID NO: 136) CX0701
ggcccttggtgctagcgctcgacactgtaaccagagtac (SEQ ID NO: 137)
TABLE-US-00031 TABLE 27 Sequences for heavy and light chain
anti-VEGF antibody pFIL2-CL-hk anti-VEGF Lc (pFIL2-VEGF-Lc)
gatattcaactgacccagagcccttcttccctgagtgccagcgtgggtgaccgtgttacgatcacttgctcggc-
cagccaagatatttctaact
acctgaattggtaccagcagaagccaggaaaggcaccaaaagtcctgatctacttcacaagttcactgcattcc-
ggcgtaccgtcgcgcttt
agcggttctggcagtggtaccgacttcaccctgactatctcgagtctgcaacctgaggattttgctacatatta-
ctgtcagcaatattcgaccgt
gccgtggacgttcgggcagggcaccaaagtggagattaagcgtacggtggctgcaccatctgtcttcatcttcc-
cgccatctgatgagcagt
tgaaatctggaactgcctctgttgtgtgcctgctgaataacttctatcccagagaggccaaagtacagtggaag-
gtggataacgccctccaat
cgggtaactcccaggagagtgtcacagagcaggacagcaaggacagcacctacagcctcagcagcaccctgacg-
ctgagcaaagcag
actacgagaaacacaaagtctacgcctgcgaagtcacccatcagggcctgagctcgcccgtcacaaagagcttc-
aacaggggagagtgtt ag (SEQ ID NO: 138)
DIQLTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSR
FSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSD
EQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTL
SKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC (SEQ ID NO: 139)
[0474] As described above, the mask 306, used for anti-VEGF AA
development did not efficiently mask the target binding over long
exposure to target, due to low affinity of the MM for the AB. One
approach to increasing the affinity of the MM is to subject the
peptide to affinity maturation as described below.
Library Construction for Affinity Maturation
[0475] The 306 anti-VEGF MM was affinity matured by using a soft
randomization approach. An ecpX cell display library was
constructed in with the nucleotide ratios shown in Table 28. The
final library diversity (306 SR) was approximately
2.45.times.10.sup.8.
TABLE-US-00032 TABLE 28 Original Base Ratio of Bases G G = 70%; T =
8%; A = 11%; C = 11% T T = 70%; G = 8%; A = 11%; C = 11% A A = 80%;
G = 5%; T = 6%; C = 9% C C = 80%; G = 5%; T = 6%; A = 9%
306 SR Library Screening
[0476] An initial MACS round was performed with protein-A labeled
magnetic beads and a number of cells that provided greater than
100.times. oversampling of the library. Prior to magnetic selection
the cells were incubated with 100 nM anti-VEGF IgG and 10 .mu.M 306
peptide (306P, PCSEWQSMVQPRCYYG (SEQ ID NO: 140)), to reduce the
binding of variants with equal or lower affinity than the original
306 sequence. Magnetic selection resulted in the isolation of
2.times.10.sup.7 cells.
[0477] The first round of FACS sorting was performed on cells
labeled with 1 nM DyLight (fluor 530 nM)-anti-VEGF. To apply
selective pressure to the population, the second and third round of
FACS was performed on cells labeled with 1 nM DyLight-anti-VEGF in
the presence of 100 nM 306P. Selection gates were set so that only
5% of cells with the strongest binding were collected. The
population of cells sorted in the third round were first incubated
with 10 nM DyLight-anti-VEGF followed by addition of 306P to a
final concentration of 100 nM and incubated at 37.degree. C. for 20
minutes. The brightest 2% of the positive population was collected,
representing binding that was not competed by 306P. FACS rounds 5
through 7 were done as follows; the populations were labeled with
10 nM DyLight labeled anti-VEGF and then competed off with
unlabeled VEGF (100 nM) at 37.degree. C. for 7, 10, and 15 minutes,
respectively. The brightest 1% were sorted in FACS rounds 5 through
7.
TABLE-US-00033 TABLE 29 306SR M1F7 peptide sequences JS306
PCSEWQSMVQPRCYYG (SEQ ID NO: 141) JS1825 SCTAWQSMVEQRCYFG (SEQ ID
NO: 142) 3X JS1826 PCSKWESMVEQRCYFA (SEQ ID NO: 143) JS1827
PCSAWQSMVEQRCYFG (SEQ ID NO: 144) 2X JS1829 PCSKWESMVLQSCYFG (SEQ
ID NO: 145) 4X JS1830 TCSAWQSMVEQRCYFG (SEQ ID NO: 146) 2X JS1837
TCSQWESMVEPRCYFG (SEQ ID NO: 147)
306SR Affinity Matured Peptide Analysis
[0478] Binding of the eCPX3.0 clones 306, JS1825, JS1827, and
JS1829 were analyzed on FACS at 3 different concentrations of
DyLight labeled anti-VEGF. The binding curves are shown in FIG. 21.
All three of the affinity matured peptides displayed at least 10
fold higher affinity than 306P.
Construction of Anti-VEGF AAs
[0479] Affinity matured ecpX3.0 clones (JS1825, JS1827, and JS1829)
were PCR amplified using primers CX0289 and CX0687 and cloned into
pFIL2-306 mVEGF-Lc using the SfiI restriction sites to produce the
vectors pFIL2-1825 mVEGF-Lc, pFIL2-1827 mVEGF-Lc, and pFIL2-1829
mVEGF-Lc. The nucleotide and amino acid sequences are provided in
the tables following. Parentheses delineate the demarcations
between the various sequence domains:
(Linker)(MM)(Linker)(CM)(Linker)(AB).
TABLE-US-00034 TABLE 30 Sequences of anti-VEGF AA: pFIL2-CL-hk
anti-VEGF mmp-9 306 Lc (pFIL2-306mVEGF-Lc)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtggg
tgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagccag-
gaaaggcaccaaaagtcc
tgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgacttc-
accctgactatctcgagtctg
caacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaa-
agtggagattaagcgtac
ggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtgt-
gcctgctgaataacttctatcc
cagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacagagc-
aggacagcaaggac
agcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcga-
agtcacccatcaggg cctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag (SEQ
ID NO: 148) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGG)(QVHMPLGFLGP)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC) (SEQ ID NO: 149)
TABLE-US-00035 TABLE 31 Sequences of anti-VEGF AA: pFIL2-CL-hk
anti-VEGF mmp-9 1825 Lc (pFIL2-1825mVEGF-Lc)
ggccagtctggccagtcgtgtacggcgtggcagtcgatggtggagcagcgttgctattttgggggctcgagcgg-
tggcagcggccaaggt
ggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtggg
tgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagccag-
gaaaggcaccaaaagtcc
tgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgacttc-
accctgactatctcgagtctg
caacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaa-
agtggagattaagcgtac
ggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtgt-
gcctgctgaataacttctatcc
cagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacagagc-
aggacagcaaggac
agcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcga-
agtcacccatcaggg cctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag (SEQ
ID NO: 150) Linker MM Linker CM Linker AB
(GQSGQ)(SCTAWQSMVEQRCYFG)(GSSGGSGQGGQ)(VHMPLGFLGP)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC) (SEQ ID NO: 151)
TABLE-US-00036 TABLE 32 Sequences of anti-VEGF AA: pFIL2-CL-hk
anti-VEGF mmp-9 1827 Lc (pFIL2-1827mVEGF-Lc) (SEQ ID NO: 152)
ggccagtctggccagccgtgttctgcgtggcagtctatggtggagcagcgttgctattttgggggctcgagcgg-
tggcagcggccaaggt
ggccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtggg
tgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagccag-
gaaaggcaccaaaagtcc
tgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgacttc-
accctgactatctcgagtctg
caacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaa-
agtggagattaagcgtac
ggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtgt-
gcctgctgaataacttctatc
ccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacagag-
caggacagcaaggac
agcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcga-
agtcacccatcaggg cctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag (SEQ
ID NO: 153) Linker MM Linker CM Linker AB
(GQSGQ)(PCSAWQSMVEQRCYFG)(GSSGGSGQGG)(QVHMPLGFLGP)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00037 TABLE 33 Sequences of anti-VEGF AA: pFIL-CL-hk
anti-VEGF mmp-9 1829 Lc (pFIL2-1829mVEGF-Lc) (SEQ ID NO: 154)
ggccagtaggccagccgtgttctaagtgggaatcgatggtgctgcagagttgctattttggcggctcgagcggt-
ggcagcggccaaggtg
gccaagtgcacatgccactgggcttcctgggtccgggcggttctgatattcaactgacccagagcccttcttcc-
ctgagtgccagcgtgggt
gaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagccagg-
aaaggcaccaaaagtcct
gatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgacttca-
ccctgactatctcgagtagc
aacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcaccaaa-
gtggagattaagcgtacg
gtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtgtg-
cctgctgaataacttctatc
ccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacagag-
caggacagcaaggaca
gcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcgaa-
gtcacccatcagggc ctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag (SEQ
ID NO: 155) Linker MM Linker CM Linker AB
(GQSGQ)(PCSKWESMVLQSCYFG)(GSSGGSGQGG)(QVHMPLGFLGP)(GGS)(DIQLTQSP
SSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGT
DFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTA
SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEK
HKVYACEVTHQGLSSPVTKSFNRGEC)
Expression and Purification of Anti-VEGF Antibody and AA
[0480] 3 .mu.g of pFIL-VEGF-Hc and 3 .mu.g pFIL2-VEGF-Lc were
co-transfected into CHO--S cells (Invitrogen) using Lipofectamine
200 (Invitrogen) according to manufacturers protocol. Transfected
cells were cultured in Freestyle CHO media (Invitrogen) and
selected for resistance to zeocin and blasticidin. Individual
clones were isolated by limiting dilution and selected for
expression of human IgG capable of binding EGFR by ELISA. All
antibodies and AAs are purified by Protein-A chromatography using
standard techniques.
[0481] Likewise, 3 .mu.g of each expression vector for AA light
chains pFIL2-306 mVEGF-Lc, pFIL2-1825 mVEGF-Lc, pFIL2-1827
mVEGF-Lc, or pFIL2-1829 mVEGF-Lc was co-transfected into CHO--S
cells with 3 .mu.g pFIL-VEGF-Hc. Transfected cells were cultured in
Freestyle CHO media (Invitrogen) and selected for resistance to
zeiocin and blasticidin. Individual clones were isolated by
limiting dilution and selected for expression of human IgG capable
of binding EGFR by ELISA.
Target Displacement Assay of Anti-VEGF Antibody and AA
[0482] VEGF is adsorbed to the wells of a 96 well micro-titer
plate, washed and blocked with milk protein. About 25 ml of culture
media containing anti-VEGF antibody or anti-VEGF AA's containing
the MM's JS306, JS1825, JS1827 and JS 1829 is added to the coated
wells and incubated for about 1, 2, 4, 8 or 24 hours. Following
incubation the wells are washed and the extent of bound AA's
measured by anti-huIgG immunodetection.
Example 16
Construction of an Anti-EGFR IgG AA
Construction of an Anti-EGFR IgG Antibody
[0483] The C225 light chain variable region gene was synthesized by
assembly PCR using oligos CX638-CX655 as in Bessette et al.,
Methods in Molecular Biology, vol. 231. The resulting product was
digested with BamHI/NotI and ligated to the large fragment of pXMal
digested with BamHI/NotI to create plasmid pX-scFv225-Vk.
Similarly, the C225 heavy chain variable region gene was
synthesized by assembly PCR using oligos CX656-CX677, digested with
BglII/NotI and ligated to pXMal BamHI/NotI to create plasmid
pX-scFv225-Vh. The variable light chain gene was then cloned from
pX-scFv225-Vk as a BamHI/NotI fragment into the pX-scFv225-Vh
plasmid at BamHI/Not to create the plasmid pX-scFv225m-HL,
containing the scFv gene based on C225.
[0484] The IL2 signal sequence was moved from pINFUSE-hIgG1-Fc2
(InvivoGen) as a KasI/NcoI fragment to pFUSE2-CLIg-hk (InvivoGen)
digested with KasI/NcoI, resulting in plasmid pFIL2-CL-hk. The IL2
signal sequence was also moved from pINFUSE-hIgG1-Fc2 as a
KasI/EcoRI fragment to pFUSE-CHIg-hG1 (InvivoGen) digested with
KasI/EcoRI (large and medium fragments) in a three-way ligation,
resulting in plasmid pFIL-CHIg-hG1.
[0485] The human IgG light chain constant region was site
specifically mutated by amplification from plasmid pFIL2-CL-hk with
oligos CX325/CX688, digestion with BsiWI/NheI, and cloning into
pFIL2-CL-hk at BsiWI/NheI, resulting in plasmid
pFIL2-CL.sub.225.
[0486] The human IgG heavy chain constant region was site
specifically mutated by amplification from plasmid pFIL-CHIg-hG1 in
three segments with oligos CX325/CX689, CX690/CX692, and
CX693/CX694, followed by overlap PCR of all three products using
outside primers CX325/CX694. The resulting product was digested
with EroRI/AvrII and cloned into pINFUSE-hIgG1-Fc2 at EcoRI/NheI,
resulting in plasmid pFIL-CH.sub.225.
[0487] The variable light chain gene segment was amplified from
pX-scFv225m-HL with oligos CX695/CX696, digested with BsaI, and
cloned into pFIL2-CL.sub.225 at EcoRI/BsiWI, resulting in the C225
light chain expression vector pFIL2-C225-light.
[0488] The variable heavy chain gene segment was amplified from
pX-scFv225m-HL with oligos CX697/CX698, digested with BsaI, and
cloned into pFIL-CH.sub.225 at EcoRI/NheI, resulting in the C225
heavy chain expression vector pFIL-C225-heavy.
TABLE-US-00038 TABLE 33 Primers Used in the Construction of
anti-EGFR IgG antibody CX268 ccgcaggtacctcgagcgctagccagtctggccag
(SEQ ID NO: 156) CX325 tgcttgctcaactctacgtc (SEQ ID NO: 157) CX370
aacttgtttattgcagctt (SEQ ID NO: 158) CX448
gagttttgtcggatccaccagagccaccgctgccaccgctcgagcc (SEQ ID NO: 159)
CX638 gcgtatgcaggatccggcggcgatattctgctgacccaga (SEQ ID NO: 160)
CX639 cacgctcagaatcaccgggctctgggtcagcagaatatcg (SEQ ID NO: 161)
CX640 gcccggtgattctgagcgtgagcccgggcgaacgtgtgag (SEQ ID NO: 162)
CX641 ggctcgcgcggcagctaaagctcacacgttcgcccgggct (SEQ ID NO: 163)
CX642 ctttagctgccgcgcgagccagagcattggcaccaacatt (SEQ ID NO: 164)
CX643 gtgcgctgctgataccaatgaatgttggtgccaatgctct (SEQ ID NO: 165)
CX644 cattggtatcagcagcgcaccaacggcagcccgcgcctgc (SEQ ID NO: 166)
CX645 ttcgctcgcatatttaatcagcaggcgcgggctgccgttg (SEQ ID NO: 167)
CX646 tgattaaatatgcgagcgaaagcattagcggcattccgag (SEQ ID NO: 168)
CX647 tgccgctgccgctaaagcggctcggaatgccgctaatgct (SEQ ID NO: 169)
CX648 ccgctttagcggcagcggcagcggcaccgattttaccctg (SEQ ID NO: 170)
CX649 ctttccacgctgttaatgctcagggtaaaatcggtgccgc (SEQ ID NO: 171)
CX650 agcattaacagcgtggaaagcgaagatattgcggattatt (SEQ ID NO: 172)
CX651 gttgttgttctgctggcaataataatccgcaatatcttcg (SEQ ID NO: 173)
CX652 attgccagcagaacaacaactggccgaccacctttggcgc (SEQ ID NO: 174)
CX653 tcagttccagtttggtgcccgcgccaaaggtggtcggcca (SEQ ID NO: 175)
CX654 gggcaccaaactggaactgaaacgcggccgccatcaccat (SEQ ID NO: 176)
CX655 ctcccacgcgtatggtgatgatggtgatggcggccgcgtt (SEQ ID NO: 177)
CX656 cgtatgcaagatctggtagcggtacccaggtgcagctgaa (SEQ ID NO: 178)
CX657 ccaggcccgggccgctctgtttcagctgcacctgggtacc (SEQ ID NO: 179)
CX658 acagagcggcccgggcctggtgcagccgagccagagcctg (SEQ ID NO: 180)
CX659 ctcacggtgcaggtaatgctcaggctctggctcggctgca (SEQ ID NO: 181)
CX660 agcattacctgcaccgtgagcggctttagcctgaccaact (SEQ ID NO: 182)
CX661 gcgcacccaatgcacgccatagttggtcaggctaaagccg (SEQ ID NO: 183)
CX662 atggcgtgcattgggtgcgccagagcccgggcaaaggcct (SEQ ID NO: 184)
CX663 aaatcacgcccagccattccaggcctttgcccgggctctg (SEQ ID NO: 185)
CX664 ggaatggctgggcgtgatttggagcggcggcaacaccgat (SEQ ID NO: 186)
CX665 ctggtaaacggggtgttataatcggtgttgccgccgctcc (SEQ ID NO: 187)
CX666 tataacaccccgtttaccagccgcctgagcattaacaaag (SEQ ID NO: 188)
CX667 cacctggcttttgctgttatctttgttaatgctcaggcgg (SEQ ID NO: 189)
CX668 ataacagcaaaagccaggtgttttttaaaatgaacagcct (SEQ ID NO: 190)
CX669 tcgcggtatcgttgctttgcaggctgttcattttaaaaaa (SEQ ID NO: 191)
CX670 gcaaagcaacgataccgcgatttattattgcgcgcgcgcg (SEQ ID NO: 192)
CX671 tcataatcataataggtcagcgcgcgcgcgcaataataaa (SEQ ID NO: 193)
CX672 ctgacctattatgattatgaatttgcgtattggggccagg (SEQ ID NO: 194)
CX673 gctcacggtcaccagggtgccctggccccaatacgcaaat (SEQ ID NO: 195)
CX674 gcaccctggtgaccgtgagcgcgggtggtagcggtagcgg (SEQ ID NO: 196)
CX675 taccgccgcctccagatcctccgctaccgctaccacccgc (SEQ ID NO: 197)
CX676 aggatctggaggcggcggtagtagtggtggaggatccggt (SEQ ID NO: 198)
CX677 tggtgatggcggccgcggccaccggatcctccaccactac (SEQ ID NO: 199)
CX688 cgagctagctccctctacgctcccctgttgaagctctttg (SEQ ID NO: 200)
CX690 acaagcgcgttgagcccaaatcttgtg (SEQ ID NO: 201) CX692
cagttcatcccgggatgggggcagggtg (SEQ ID NO: 202) CX693
ccccatcccgggatgaactgaccaagaaccaggtcagc (SEQ ID NO: 203) CX694
ctggccacctaggactcatttaccc (SEQ ID NO: 204) CX695
gcactggtctcgaattcggatattctgctgacccagag (SEQ ID NO: 205) CX696
ggtgcggtctccgtacgtttcagttccagtttggtg (SEQ ID NO: 206) CX697
gcactggtctcgaattcgcaggtgcagctgaaacagag (SEQ ID NO: 207) CX698
gagacggtctcgctagccgcgctcacggtcaccag (SEQ ID NO: 208) CX730
tgcgtatgcaagatctggtagcggtaccgatattctgctgacccagag (SEQ ID NO: 209)
CX731 actactaccgccgcctccagatcctccgctaccgctaccacctttcagttccagtttggtg
(SEQ ID NO: 210) CX732
tctggaggcggcggtagtagtggtggaggctcaggcggccaggtgcagctgaaacagag (SEQ ID
NO: 211) CX733 gatggtgatggcggccgcgcgcgctcacggtcaccag (SEQ ID NO:
212) CX735 tgtcggatccaccgctaccgcccgcgctcacggtcaccag (SEQ ID NO:
213) CX740
tcacgaattcgcaaggccagtctggccagggctcgagcggtggcagcggtggctctggtggatccggc-
ggtggca (SEQ ID NO: 214) CX741
tggtggatccggcggtggcagcggtggtggctccggcggtaccggcggtagcggtagatctgacaaaa-
ctcacac (SEQ ID NO: 215) CX747
gatccccgtctccgccagtcaaaatgatgccggaaggcggtac (SEQ ID NO: 216) CX748
cgccttccggcatcattttgactggcggagacggg (SEQ ID NO: 217)
Construction of Expression Vectors for Anti-EGFR AAs
[0489] Plasmid pX-scFv225m-HL was PCR amplified in separate
reactions with primers CX730/CX731 and CX732/CX733, and the
resulting products were amplified by overlap PCR with outside
primers CX730/CX733, digested with BglII/NotI, and cloned into
pXMal at BamHI/NotI, resulting in plasmid pX-scFv225m-LH.
[0490] Linker sequence was added to the N-terminal side of the
human IgG Fc fragment gene by PCR amplification of pFUSE-hIgG-Fc2
in a reaction with overlapping forward primers CX740,CX741 and
reverse primer CX370. The resulting product was digested with
EcoRI/BglII, and the .about.115 bp fragment was cloned into
pFUSE-hIgG-Fc2 at EcoRI/BglII. The resulting plasmid was digested
with KpnI/BglII, and the large fragment was ligated to the
KpnI/BamHI-digested PCR product of amplifying pX-scFv225m-LH with
oligos CX736/CX735, resulting in plasmid pPHB3734.
[0491] The resulting plasmid was digested with SfiI/XhoI, and
masking peptide 3690 was cloned in as an SfiI/XhoI fragment of
pPHB3690, resulting in plasmid pPHB3783.
[0492] The protease substrate SM984 was added by digesting the
resulting plasmid with BamHI/KpnI and ligating the product of
annealing the phosphorylated oligos CX747/CX748, resulting in
plasmid pPHB3822.
[0493] The tandem peptide mask was constructed by digesting the
resulting plasmid with XhoI, dephosphorylating the 5' ends, and
cloning in the XhoI-digested PCR product of amplifying pPHB3579
with primers CX268/CX448, resulting in plasmid pPHB3889.
[0494] The masking region, linker, substrate, and light chain
variable region of pPHB3783, pPHB3822, and pPHB3889 were amplified
by PCR with primers CX325/CX696, digested with EcoRI/BsiWI, and
cloned into pFIL2-CL.sub.225 at EcoRI/BsiWI, resulting in the AA
light chain expression vectors pPHB4007, pPHB3902, and pPHB3913
respectively.
[0495] Affinity matured masking peptides were swapped into the AA
light chain expression vectors by cloning as SfiI/XhoI fragments.
Protease substrates were swapped in as BamHI/KpnI compatible
fragments.
Expression and Purification of the Anti-EGFR Antibody and AAs
[0496] 3 .mu.g of pFIL-CH.sub.225-HL and 3 .mu.g pFIL2-CH225-light
were co-transfected into CHO--S cells (Invitrogen) using
Lipofectamine 200 (Invitrogen) according to manufacturers protocol.
Transfected cells were cultured in Freestyle CHO media (Invitrogen)
and selected for resistance to zeocin and blasticidin. Individual
clones were isolated by limiting dilution and selected for
expression of human IgG capable of binding EGFR by ELISA. All
antibodies and AAs are purified by Protein-A chromatography using
standard techniques.
[0497] Likewise, 3 .mu.g of each expression vector for AA light
chains was co-transfected into CHO--S cells with 3 .mu.g
pFIL-CH.sub.225-HL. Transfected cells were cultured in Freestyle
CHO media (Invitrogen) and selected for resistance to zeiocin and
blasticidin. Individual clones were isolated by limiting dilution
and selected for expression of human IgG capable of binding EGFR by
ELISA.
Screening of the Affinity Matured Anti-EGFR MM Library.
[0498] An initial MACS round was performed with SA dynabeads and
1.4.times.10.sup.8 cells from the ecpX3-755 library. Prior to
magnetic selection the cells were incubated with 3 nM biotin
labeled C225Mab. Magnetic selection resulted in the isolation of
6.times.10.sup.6 cells. The first round of FACS sorting was
performed on 2.times.10.sup.7 cells labeled with 0.1 nM DyLight
(fluor 530 nM)-C225Mab and resulted in isolation of
1.5.times.10.sup.5 cells with positive binding. To apply increased
selective pressure to the population, the second round of FACS was
performed on cells labeled with 10 nM DyLight-C225Mab in the
presence of 100 uM 3690 peptide (CISPRGC (SEQ ID NO: 1)) at
37.degree. C. To further increase the selection pressure the
3.sup.rd and 4.sup.th rounds were performed on cells labeled with
100 nM DyLight-C225Fab in the presence of 100 uM3690 peptide
(CISPRGC (SEQ ID NO: 1)) at 37.degree. C. The brightest 1% of the
positive population were collected, representing binding that was
not competed by 3690 peptide. On cell affinity measurements of
individual clones isolated from the above screen revealed three
peptides, 3954(CISPRGCPDGPYVM (SEQ ID NO: 218)),
3957(CISPRGCEPGTYVPT (SEQ ID NO: 219)) and 3958(CISPRGCPGQIWHPP
(SEQ ID NO: 220)) with affinities for C225 at least 100 fold
greater than 3690 (CISPRGC (SEQ ID NO: 1)). These three MMs were
incorporated into anti-EGFR AAs. FIG. 22 shows the process for
affinity maturation of some of the EGFR MM's.
Affinity Measurement for C225 MMs
[0499] On-cell affinity measurement of C225 Fab binding to MM's
3690, 3954 and 3957. Binding of the eCPX3.0 clones 3690, 3954 and
3957 were analyzed on FACS at 3 different concentrations of DyLight
labeled anti-EGFR Fab. The binding curves are shown in FIG. 23. MMs
3954 and 3957 displayed at least 100 fold higher affinity than
3690.
Target Displacement Assay for Anti-EGFR AAs
[0500] EGFR was adsorbed to the wells of a 96 well micro-titer
plate, washed and blocked with milk protein. 25 ml of culture media
containing 2 nM anti-EGFR antibody or anti-EGFR AA's containing the
MM's 3690, 3957, 3954 and 3960/3579 was added to the coated wells
and incubated for 1, 2, 4, 8 or 24 hours. Following incubation the
wells were washed and the extent of bound AA's measured by
anti-huIgG immunodetection. Anti-EGFR AA binding was normalized to
anti-EGFR antibody binding (100%) for direct comparison of the
masking efficiency in the AA context. The extents of equilibrium
binding as a percent of parental or unmodified antibody binding are
shown in Table 34 and FIG. 24. Whereas MMs 3954 and 3957 display
the same affinity, 100 times higher than 3609, 3954 is at least 2
times more efficient at inhibiting target binding. The sequences of
the C225 heavy and light chains, MMs, and AAs are provided in the
tables following. Nucleotide and amino acid sequences provided in
the tables following. Parentheses delineate the demarcations
between the various sequence domains:
(Linker)(MM)(Linker)(CM)(Linker)(AB).
TABLE-US-00039 TABLE 34 C225 TDA: Percent of parental antibody
binding .+-. SEM at each time point Time (hours) 3690 AA 3954 AA
3975 AA 3690/3579 AA 1 15.5 .+-. 4.2 4.4 .+-. 1.8 7.3 .+-. 2.0 3.6
.+-. 1.2 2 19.3 .+-. 6.0 6.0 .+-. 2.0 9.3 .+-. 2.8 2.1 .+-. 0.6 4
21.5 .+-. 5.0 7.6 .+-. 1.7 12.8 .+-. 2.3 3.3 .+-. 1.2 8 27.6 .+-.
7.4 9.7 .+-. 0.4 14.9 .+-. 0.03 3.0 .+-. 1.6 24 20.0 .+-. 9.1 13.4
.+-. 1.2 22.3 .+-. 2.6 2.8 .+-. 0.1
TABLE-US-00040 TABLE 35 C225 Heavy Chain (SEQ ID NO: 221)
caggtgcagctgaaacagagcggcccgggcctggtgcagccgagccagagcctgagcattacctgcaccgtgag-
cggctttagcctga
ccaactatggcgtgcattgggtgcgccagagcccgggcaaaggcctggaatggctgggcgtgatttggagcggc-
ggcaacaccgattat
aacaccccgtttaccagccgcctgagcattaacaaagataacagcaaaagccaggtgttttttaaaatgaacag-
cctgcaaagcaacgatac
cgcgatttattattgcgcgcgcgcgctgacctattatgattatgaatttgcgtattggggccagggcaccctgg-
tgaccgtgagcgcggctag
caccaagggcccatcggtcttccccctggcaccctcctccaagagcacctctgggggcacagcggccctgggct-
gcctggtcaaggact
acttccccgaaccggtgacggtgtcgtggaactcaggcgccctgaccagcggcgtgcacaccttcccggctgtc-
ctacagtcctcaggact
ctactccctcagcagcgtggtgaccgtgccctccagcagcttgggcacccagacctacatctgcaacgtgaatc-
acaagcccagcaacac
caaggtggacaagcgcgttgagcccaaatcttgtgacaaaactcacacatgcccaccgtgcccagcacctgaac-
tcctggggggaccgtc
agtcttcctcttccccccaaaacccaaggacaccctcatgatctcccggacccctgaggtcacatgcgtggtgg-
tggacgtgagccacgaa
gaccctgaggtcaagttcaactggtacgtggacggcgtggaggtgcataatgccaagacaaagccgcgggagga-
gcagtacaacagca
cgtaccgtgtggtcagcgtcctcaccgtcctgcaccaggactggctgaatggcaaggagtacaagtgcaaggtc-
tccaacaaagccctcc
cagcccccatcgagaaaaccatctccaaagccaaagggcagccccgagaaccacaggtgtacaccctgccccca-
tcccgggatgaact
gaccaagaaccaggtcagcctgacctgcctggtcaaaggcttctatcccagcgacatcgccgtggagtgggaga-
gcaatgggcagccgg
agaacaactacaagaccacgcctcccgtgctggactccgacggctccttcttcctctacagcaagctcaccgtg-
gacaagagcaggtggc
agcaggggaacgtcttctcatgctccgtgatgcatgaggctctgcacaaccactacacgcagaagagcctctcc-
ctgtctccgggtaaa (SEQ ID NO: 222)
QVQLKQSGPGLVQPSQSLSITCTVSGFSLTNYGVHWVRQSPGKGLEWLGVIWSGGNTD
YNTPFTSRLSINKDNSKSQVFFKMNSLQSNDTAIYYCARALTYYDYEFAYWGQGTLVT
VSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAV
LQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHTCPPCPAPE
LLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPR
EEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTL
PPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLT
VDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK
TABLE-US-00041 TABLE 36 Sequence of 3690-SM984-C225 Light Chain
(SEQ ID NO: 223)
Caaggccagtctggccagtgcatctcgccccgtggttgtggaggctcgagcggtggcagcggtggctctggtgg-
atccccgtctccgcc
agtcaaaatgatgccggaaggcggtacccagatcttgctgacccagagcccggtgattctgagcgtgagcccgg-
gcgaacgtgtgagctt
tagctgccgcgcgagccagagcattggcaccaacattcattggtatcagcagcgcaccaacggcagcccgcgcc-
tgctgattaaatatgc
gagcgaaagcattagcggcattccgagccgctttagcggcagcggcagcggcaccgattttaccctgagcatta-
acagcgtggaaagcg
aagatattgcggattattattgccagcagaacaacaactggccgaccacctttggcgcgggcaccaaactggaa-
ctgaaacgtacggtggc
tgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtgtgcctgc-
tgaataacttctatcccagag
aggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacagagcaggac-
agcaaggacagcacc
tacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcgaagtcac-
ccatcagggcctgag ctcgcccgtcacaaagagcttcaacaggggagcg (SEQ ID NO: 224)
Linker MM Linker CM Linker AB
(QGQSGQ)(CISPRGC)(GGSSGGSGGSGGS)(PSPPVKMMPE)(GG)(TQILLTQSPVILSVSPG
ERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSINSVE
SEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNN
FYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEV
THQGLSSPVTKSFNRGA)
TABLE-US-00042 TABLE 37 Sequence of 3579-NSUB-C225 Light Chain (SEQ
ID NO: 225)
caaggccagtctggccagggttcacattgtctcattcctattaacatgggcgcgccgtcatgcggctcgagcgg-
tggcagcggtggctctg
gtggatccggcggtggcagcggtggtggctccggcggtacccagatcttgctgacccagagcccggtgattctg-
agcgtgagcccgggc
gaacgtgtgagctttagctgccgcgcgagccagagcattggcaccaacattcattggtatcagcagcgcaccaa-
cggcagcccgcgcctg
ctgattaaatatgcgagcgaaagcattageggcattccgagccgctttagcggcagcggcagcggcaccgattt-
taccctgagcattaaca
gcgtggaaagcgaagatattgcggattattattgccagcagaacaacaactggccgaccacctttggcgcgggc-
accaaactggaactga
aacgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctct-
gttgtgtgcctgctgaataac
ttctatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgt-
cacagagcaggacag
caaggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacg-
cctgcgaagtcacc catcagggcctgagctcgcccgtcacaaagagcttcaacaggggagcg
(SEQ ID NO: 226) Linker MM Linker AB
(QGQSGQ)(GSHCLIPINMGAPSC)(GSSGGSGGSGGSGGGSGGGSGG)(TQILLTQSPVILSV
SPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSIN
SVESEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASVVCLL
NNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYAC
EVTHQGLSSPVTKSFNRGA)
TABLE-US-00043 TABLE 38 Sequence of 3690-3579-SM984-C225 Light
Chain (SEQ ID NO: 227)
caaggccagtctggccagtgcatctcgccccgtggttgtggaggctcgagcgctagccagtctggccagggttc-
acattgtctcattcctatt
aacatgggcgcgccgtcatgcggctcgagcggtggcagcggtggctctggtggatccccgtctccgccagtcaa-
aatgatgccggaagg
cggtacccagatcttgctgacccagagcccggtgattctgagcgtgagcccgggcgaacgtgtgagctttagct-
gccgcgcgagccaga
gcattggcaccaacattcattggtatcagcagcgcaccaacggcagcccgcgcctgctgattaaatatgcgagc-
gaaagcattagcggcat
tccgagccgctttagcggcagcggcagcggcaccgattttaccctgagcattaacagcgtggaaagcgaagata-
ttgcggattattattgcc
agcagaacaacaactggccgaccacctttggcgcgggcaccaaactggaactgaaacgtacggtggctgcacca-
tctgtcttcatcttccc
gccatctgatgagcagttgaaatctggaactgcctctgttgtgtgcctgctgaataacttctatcccagagagg-
ccaaagtacagtggaaggt
ggataacgccctccaatcgggtaactcccaggagagtgtcacagagcaggacagcaaggacagcacctacagcc-
tcagcagcaccctg
acgctgagcaaagcagactacgagaaacacaaagtctacgcctgcgaagtcacccatcagggcctgagctcgcc-
cgtcacaaagagctt caacaggggagcg (SEQ ID NO: 228) Linker MM Linker CM
(QGQSGQ)(CISPRGCGGSSASQSGQGSHCLIPINMGAPSC)(GSSGGSGGSGGS)(PSPPVKMMPE)
Linker AB
(GG)(TQILLTQSPVILSVSPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGI
PSRFSGSGSGTDFTLSINSVESEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFP
PSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSST
LTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGA)
TABLE-US-00044 TABLE 39 Sequence of 3954-NSUB-C225 Light Chain (SEQ
ID NO: 229)
caaggccagtctggccagtgcatctcacctcgtggttgtccggacggcccatacgtcatgtacggctcgagcgg-
tggcagcggtggctctg
gtggatccggcggtggcagcggtggtggctccggcggtacccagatcttgctgacccagagcccggtgattctg-
agcgtgagcccgggc
gaacgtgtgagctttagctgccgcgcgagccagagcattggcaccaacattcattggtatcagcagcgcaccaa-
cggcagcccgcgcctg
ctgattaaatatgcgagcgaaagcattagcggcattccgagccgctttagcggcagcggcagcggcaccgattt-
taccctgagcattaaca
gcgtggaaagcgaagatattgcggattattattgccagcagaacaacaactggccgaccacctttggcgcgggc-
accaaactggaactga
aacgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctct-
gttgtgtgcctgctgaataac
ttctatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgt-
cacagagcaggacag
caaggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacg-
cctgcgaagtcacc catcagggcctgagctcgcccgtcacaaagagcttcaacaggggagcg
(SEQ ID NO: 230) Linker MM Linker AB
(QGQSGQ)(CISPRGCPDGPYVMY)(GSSGGSGGSGGSGGGSGGGSGG)(TQILLTQSPVILS
VSPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSI
NSVESEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASVVC
LLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVY
ACEVTHQGLSSPVTKSFNRGA)
TABLE-US-00045 TABLE 40 Sequence of 3957-NSUB-C225 Light Chain (SEQ
ID NO: 231)
caaggccagtctggccagtgcatctcacctcgtggttgtgagcctggcacctatgttccaacaggctcgagcgg-
tggcagcggtggctctg
gtggatccggcggtggcagcggtggtggctccggcggtacccagatcttgctgacccagagcccggtgattctg-
agcgtgagcccgggc
gaacgtgtgagctttagctgccgcgcgagccagagcattggcaccaacattcattggtatcagcagcgcaccaa-
cggcagcccgcgcctg
ctgattaaatatgcgagcgaaagcattagcggcattccgagccgctttagcggcagcggcagcggcaccgattt-
taccctgagcattaaca
gcgtggaaagcgaagatattgcggattattattgccagcagaacaacaactggccgaccacctttggcgcgggc-
accaaactggaactga
aacgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctct-
gttgtgtgcctgctgaataac
ttctatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgt-
cacagagcaggacag
caaggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacg-
cctgcgaagtcacc catcagggcctgagctcgcccgtcacaaagagcttcaacaggggagcg
(SEQ ID NO: 232) Linker MM Linker AB
(QGQSGQ)(CISPRGCEPGTYVPT)(GSSGGSGGSGGSGGGSGGGSGG)(TQILLTQSPVILSV
SPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSIN
SVESEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASVVCLL
NNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYAC
EVTHQGLSSPVTKSFNRGA)
TABLE-US-00046 TABLE 41 Sequence of 3958-NSUB-C225 Light Chain (SEQ
ID NO: 233)
caaggccagtctggccagtgcatctcacctcgtggttgtccgggccaaatttggcatccacctggctcgagcgg-
tggcagcggtggctctg
gtggatccggcggtggcagcggtggtggctccggcggtacccagatcttgctgacccagagcccggtgattctg-
agcgtgagcccgggc
gaacgtgtgagctttagctgccgcgcgagccagagcattggcaccaacattcattggtatcagcagcgcaccaa-
cggcagcccgcgcctg
ctgattaaatatgcgagcgaaagcattagcggcattccgagccgctttagcggcagcggcagcggcaccgattt-
taccctgagcattaaca
gcgtggaaagcgaagatattgcggattattattgccagcagaacaacaactggccgaccacctttggcgcgggc-
accaaactggaactga
aacgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctct-
gttgtgtgcctgctgaataac
ttctatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgt-
cacagagcaggacag
caaggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacg-
cctgcgaagtcacc catcagggcctgagctcgcccgtcacaaagagcttcaacaggggagcg
(SEQ ID NO: 234) Linker MM Linker AB
(QGQSGQ)(CISPRGCPGQIWHPP)(GSSGGSGGSGGSGGGSGGGSGG)(TQILLTQSPVILSV
SPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGSGTDFTLSIN
SVESEDIADYYCQQNNNWPTTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASVVCLL
NNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYAC
EVTHQGLSSPVTKSFNRGA)
TABLE-US-00047 TABLE 42 Sequences of C225 MMs: 3690 CISPRGC (SEQ ID
NO: 1) 3579 GSHCLIPINMGAPSC (SEQ ID NO: 236) 3690-3579
CISPRGCGGSSASQSGQGSHCLIPINMGAPSC (SEQ ID NO: 237) 3954
CISPRGCPDGPYVMY (SEQ ID NO: 238) 3957 CISPRGCEPGTYVPT (SEQ ID NO:
239) 3958 CISPRGCPGQIWHPP (SEQ ID NO: 240) 4124 CNHHYFYTCGCISPRGCPG
(SEQ ID NO: 241) 4125 ADHVFWGSYGCISPRGCPG (SEQ ID NO: 242) 4127
CHHVYWGHCGCISPRGCPG (SEQ ID NO: 243) 4133 CPHFTTTSCGCISPRGCPG (SEQ
ID NO: 244) 4137 CNHHYHYYCGCISPRGCPG (SEQ ID NO: 245) 4138
CPHVSFGSCGCISPRGCPG (SEQ ID NO: 246) 4140 CPYYTLSYCGCISPRGCPG (SEQ
ID NO: 247) 4141 CNHVYFGTCGCISPRGCPG (SEQ ID NO: 248) 4143
CNHFTLTTCGCISPRGCPG (SEQ ID NO: 249) 4148 CHHFTLTTCGCISPRGCPG (SEQ
ID NO: 250) 4157 YNPCATPMCCISPRGCPG (SEQ ID NO: 251)
EGFR MM Consensus Sequences
[0501] The consensus sequences for the EGFR MMs are provided below.
The 3690 MM consensus (CISPRGC (SEQ ID NO: 1)) is one major
consensus sequence.
TABLE-US-00048 TABLE 43 C225 EGFR MM Consensus Sequences
##STR00001## ##STR00002## ##STR00003## ##STR00004## ##STR00005##
##STR00006## ##STR00007## ##STR00008## ##STR00009## ##STR00010##
##STR00011## ##STR00012## EGFR consensus Sequences from the
2.sup.nd round of screening for higher affinity masks ##STR00013##
##STR00014## ##STR00015##
Example 17
Selective Substrate/CM Discovery and Testing
[0502] The section below the process for selective substrate
discovery and testing for a number of exemplary enzymes.
uPA Selective Substrate Discovery
[0503] uPA-selective substrates were isolated from an 8eCLiPS
bacterial library consisting of .about.10.sup.8 random 8-mer
substrates expressed as N-terminal fusions on the surface of E.
coli. Alternating rounds of positive and negative selections by
FACS were used to enrich for substrates optimized for cleavage by
uPA and resistant to cleavage by the off-target serine proteases
klk5 and 7. The naive library was incubated with 8 ug/ml uPA for 1
h at 37.degree. C. followed by labeling with SAPE (red) and yPET
mona (green). Cleavage by uPA results in loss of the SAPE tag and
allows for sorting of bacteria expressing uPA substrates (green
only, positive selection) from bacteria expressing uncleaved
peptides (red+green). uPA substrates were sorted by FACS and the
enriched pool was amplified and then incubated with 5 ng/ml KLK5
and 7 for 1 h at 37.degree. C., labeled with SAPE and yPET mona,
and sorted for lack of cleavage by these off-target proteases
(red+green, negative selection). The pool was amplified and sorted
with 4 additional alternating rounds of positive and negative FACS
using decreasing concentrations of uPA (4 ug/ml, 2 ug/ml) and
increasing concentrations of klk5 and 7 (5 ng/ml, 10 ng/ml).
Individual clones from the last 3 rounds of FACS were sequenced and
grouped into several consensuses (Table 44). Clones from each
consensus were then analyzed individually for cleavage by a range
of concentrations of uPA, klk5 and 7 and plasmin for specificity of
cleavage by on versus off-target proteases in Table 44. FIG. 25
shows that unlike the uPA control and substrate SM16, KK1203, 1204
and 1214 show resistance to cleavage by KLK5, KLK7 and Plasmin.
TABLE-US-00049 TABLE 44 uPA Consensus sequences (SEQ ID NOS
267-280, respectively, in order of appearance) ##STR00016##
##STR00017## ##STR00018##
Plasmin Selective Substrate Discovery
[0504] Plasmin-selective substrates were isolated from a second
generation plasmin 10eCLiPS bacterial library consisting of
.about.10.sup.8 random 10-mer substrates expressed as N-terminal
fusions on the surface of E. coli (ref). Alternating rounds of
positive and negative selections by FACS were used to enrich for
substrates optimized for cleavage by plasmin and resistant to
cleavage by the off-target matrix metalloproteinases (represented
by MMP-9) and serine proteases (represented by klk5 and klk7).
[0505] The second generation plasmin 10eCLiPS library was based on
a consensus sequence identified in-house by selecting the naive
8eCLiPS for rapidly cleaved plasmin substrates using concentrations
as low as 30 pM plasmin for selection. Individual residues within
the 10mer were either random (n=20), restricted (1<n>20) or
fixed (n=1) to bias the peptide toward the consensus sequence while
allowing flexibility to down-select away from unfavorable
off-target sequences.
[0506] The second generation plasmin 10eCLiPS library was incubated
with 300 pM plasmin for 1 h at 37.degree. C. followed by labeling
with SAPE (red) and yPET mona (green). Cleavage by plasmin results
in loss of the SAPE tag and allows for sorting of bacteria
expressing plasmin substrates (green only, positive selection) from
bacteria expressing uncleaved peptides (red+green). plasmin
substrates were sorted by FACS and the enriched pool was amplified
and then incubated with 80 U/ml MMP-9 2 h at 37.degree. C., labeled
with SAPE and yPET mona, and sorted for lack of cleavage by these
off-target proteases (red+green, negative selection). The pool was
amplified and sorted with 4 additional alternating rounds of
positive and negative FACS using plasmin (round three at 100 pM or
300 pM, round five at 100 pM or 300 pM) and klk5 and 7 (Round four
at 100 ng/ml, round six at 200 ng/ml). Individual clones from each
the last 2 rounds of FACS were sequenced (Table 45). Clones from
each consensus were then analyzed individually for cleavage by
plasmin, MMP-9, klk5 and klk7 for specificity of cleavage by on
versus off-target proteases. Representative data showing increased
specificity towards Plasmin cleavage is shown in FIG. 26. FIG. 26
shows that unlike a non-optimized substrate, the optimized
substrates Plas1237, Plas129 and Plas 1254 show resistance to
cleavage by KLK5, KLK7.
TABLE-US-00050 TABLE 45 Peptide sequences derived from three rounds
of Positive selection for Plasmin cleavage and negative selection
for MMP9, KLK5 and KLK7 SM1191 EHPRVKVVSE (SEQ ID NO: 281) SM1197
PPPDMKLFPG (SEQ ID NO: 282) SM1200 PPPVLKLLEW (SEQ ID NO: 283)
SM1203 VLPELRSVFS (SEQ ID NO: 284) SM1206 APPSFKLVNA (SEQ ID NO:
285) SM1212 PPPEVRSFSV (SEQ ID NO: 286) SM1214 ALPSVKMVSE (SEQ ID
NO: 287) SM1215 ETPSVKTMGR (SEQ ID NO: 288) SM1219 AIPRVRLFDV (SEQ
ID NO: 289) SM1224 GLGTPRGLFA (SEQ ID NO: 290) SM1276 DRPKVKTMDF
(SEQ ID NO: 291) SM1275 RVPKVKVMLD (SEQ ID NO: 292) SM1274
APPLVKSMVV (SEQ ID NO: 293) SM1272 REPFMKSLPW (SEQ ID NO: 294)
SM1270 PVPRLKLIKD (SEQ ID NO: 295) SM1269 KGPKVKVVTL (SEQ ID NO:
296) SM1268 ERPGVKSLVL (SEQ ID NO: 297) SM1267 NZPRVRLVLP (SEQ ID
NO: 298) SM1265 PRPFVKSVDQ (SEQ ID NO: 299) SM1263 RFPSLKSFPL (SEQ
ID NO: 300) SM1261 ESPVMKSMAL (SEQ ID NO: 301) SM1260 VAPQLKSLVP
(SEQ ID NO: 302) SM1255 APPLVKSMVV (SEQ ID NO: 303) SM1254
NMPSFKLVTG (SEQ ID NO: 304) SM1245 DRPEMKSLSG (SEQ ID NO: 305)
SM1244 EQPEVKMVKG (SEQ ID NO: 306) SM1243 AVPKVRVVPE (SEQ ID NO:
307) SM1241 DLPLVKSLPS (SEQ ID NO: 308) SM1240 EAPKVKALPK (SEQ ID
NO: 309) SM1239 GFPHMKTFQH (SEQ ID NO: 310) SM1238 YDPZVKVVLA (SEQ
ID NO: 311) SM1237 ASPTMKTVGL (SEQ ID NO: 312) SM1236 DVPPMKTLRP
(SEQ ID NO: 313) SM1235 AFPDMRSVRS (SEQ ID NO: 314) SM1234
SAPYFRMMDM (SEQ ID NO: 315) SM1233 EKPRMKLFQG (SEQ ID NO: 316)
SM1231 YVPRVKALEM (SEQ ID NO: 317)
uPA Enzyme Activated AA Sequences
[0507] Nucleotide and amino acid sequences of uPA enzyme-activated
anti VEGF light chain AAs are provided in the tables below.
Parentheses delineate the demarcations between the various sequence
domains: (Linker)(MM)(Linker)(CM)(Linker)(AB).
TABLE-US-00051 TABLE 46 PFIL2-CLIg-HK-anti-VegF 306 KK1203 LC (SEQ
ID NO: 318)
Ggccagtaggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgetattatgggggcggttctggt-
ggcagcggccaaggt
ggccaaggtactggccgtggtccaagctgggttggcagtagcggcggttctgatattcaactgacccagagccc-
ttcttccctgagtgccag
cgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcaga-
agccaggaaaggcaccaa
aagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtacc-
gacttcaccctgactatctcg
agtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcaggg-
caccaaagtggagattaag
cgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctagtt-
gtgtgcctgctgaataacttc
tatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcac-
agagcaggacagcaa
ggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcct-
gcgaagtcacccatc agggcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 319) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(GTGRGPSWVGSS)(GGS)(DIQLT
QSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSG
SGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKS
GTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKAD
YEKHKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00052 TABLE 47 PFIL2-CLIg-HK-antiVegF 306 KK1204 LC (SEQ
ID NO: 320)
ggccagtaggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctggt-
ggcagcggccaaggt
ggccaaggtctgagcggccgttccgataatcatggcagtagcggcggttctgatattcaactgacccagagccc-
ttcttccctgagtgccag
cgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcaga-
agccaggaaaggcaccaa
aagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtacc-
gacttcaccctgactatctcg
agtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcaggg-
caccaaagtggagattaag
cgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctagtt-
gtgtgcctgctgaataacttc
tatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcac-
agagcaggacagcaa
ggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcct-
gcgaagtcacccatc agggcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 321) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(GLSGRSDNHGSS)(GGS)(DIQLT
QSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSG
SGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKS
GTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKAD
YEKHKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00053 TABLE 48 PFIL2-CLIg-HK-antiVegF 306 KK1214 LC (SEQ
ID NO: 322)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaaccactgactggtcgtagcggtggtggaggaagtagcggcggttctgatattcaactgacccagagccc-
ttcttccctgagtgcca
gcgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcag-
aagccaggaaaggcacc
aaaagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggta-
ccgacttcaccctgactatct
cgagtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcag-
ggcaccaaagtggagatta
agcgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctct-
gttgtgtgcctgctgaataac
ttctatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgt-
cacagagcaggacag
caaggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacg-
cctgcgaagtcacc
catcagggcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag (SEQ ID NO:
323) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(PLTGRSGGGGSS)(GGS)(DIQLT
QSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSG
SGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKS
GTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKAD
YEKHKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00054 TABLE 49 PFIL2-CLIg-HK-antiVegF 306 SM1215 LC (SEQ
ID NO: 324)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaagaaactccatctgtaaagactatgggccgtagtagcggcggttctgatattcaactgacccagagccc-
ttcttccctgagtgccag
cgtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcaga-
agccaggaaaggcaccaa
aagtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtacc-
gacttcaccctgactatctcg
agtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcaggg-
caccaaagtggagattaag
cgtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctagtt-
gtgtgcctgctgaataacttc
tatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcac-
agagcaggacagcaa
ggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcct-
gcgaagtcacccatc agggcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 325) Linker MM Linker CM Linker AB
GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(ETPSVKTMGRSS)(GGS)(DIQLTQ
SPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGS
GTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSG
TASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADY
EKHKVYACEVTHQGLSSPVTKSFNRGEC)
Plasmin-Activated AA Sequences
[0508] Nucleotide and amino acid sequences of plasmin
enzyme-activated anti VEGF light chain AAs are provided in the
tables below. Parentheses delineate the demarcations between the
various sequence domains: (Linker)(MM)(Linker)(CM)(Linker)(AB).
TABLE-US-00055 TABLE 50 PFIL2-CLIg-HK-antiVegF 306 SM1239 LC (SEQ
ID NO: 326)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaaggtttcccacatatgaaaactttccagcatagtagcggcggttctgatattcaactgacccagagccc-
ttcttccctgagtgccagc
gtgggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaa-
gccaggaaaggcaccaaa
agtcctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccg-
acttcaccctgactatctcga
gtctgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggc-
accaaagtggagattaagc
gtacggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgtt-
gtgtgcctgctgaataacttc
tatcccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcac-
agagcaggacagcaa
ggacagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcct-
gcgaagtcacccatc agggcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 327) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(GFPHMKTFQHSS)(GGS)(DIQLT
QSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSG
SGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKS
GTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKAD
YEKHKVYACEVTHQGLSSPVTKSFNRGEC)
Legumain-Activated AAs
[0509] The sequences for the legumain substrates AANL (SEQ ID NO:
361) and PTNL (SEQ ID NO: 362) are known in the art (Liu, et al.
2003. Cancer Research 63, 2957-2964; Mathieu, et al 2002. Molecular
and Biochemical Parisitology 121, 99-105). Nucleotide and amino
acid sequences of legumain enzyme-activated anti VEGF light chain
AAs are provided in the tables below. Parentheses delineate the
demarcations between the various sequence domains:
(Linker)(MM)(Linker)(CM)(Linker)(AB).
TABLE-US-00056 TABLE 51 PFIL2-CLIg-HK-antiVEGF 306 AANL (SEQ ID NO:
361) Light Chain (SEQ ID NO: 328)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaagcagctaatctgggcagcggaggaagtagcggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtg
ggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagcc-
aggaaaggcaccaaaagt
cctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgact-
tcaccctgactatctcgagtc
tgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcacc-
aaagtggagattaagcgta
cggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtg-
tgcctgctgaataacttctat
cccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacaga-
gcaggacagcaagga
cagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcg-
aagtcacccatcagg gcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 329) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(AANLGSGGSS)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00057 TABLE 52 PFIL2-CLIg-HK-antiVEGF 306 PTNL (SEQ ID NO:
362) Light Chain (SEQ ID NO: 330)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaaccgactaatctgggcagcggaggaagtagcggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtgg
gtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagcca-
ggaaaggcaccaaaagtc
ctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgactt-
caccctgactatctcgagtct
gcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcacca-
aagtggagattaagcgta
cggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtg-
tgcctgctgaataacttctat
cccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacaga-
gcaggacagcaagga
cagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcg-
aagtcacccatcagg gcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 331) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(PTNLGSGGSS)(GGS)(DIQLTQSP
SSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGT
DFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTA
SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEK
HKVYACEVTHQGLSSPVTKSFNRGEC)
TABLE-US-00058 TABLE 53 PFIL2-CLIg-HK-antiVEGF 306 PTN Light Chain
(SEQ ID NO: 332)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaaccgactaatggtggcagcggaggaagtagcggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtg
ggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagcc-
aggaaaggcaccaaaagt
cctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgact-
tcaccctgactatctcgagtc
tgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcacc-
aaagtggagattaagcgta
cggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtg-
tgcctgctgaataacttctat
cccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacaga-
gcaggacagcaagga
cagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcg-
aagtcacccatcagg gcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 333) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(PTNGGSGGSS)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC)
Caspase Activated AAs
[0510] Nucleotide and amino acid sequences of caspase
enzyme-activated anti VEGF light chain AAs are provided in the
tables below. Parentheses delineate the demarcations between the
various sequence domains: (Linker)(MM)(Linker)(CM)(Linker)(AB). The
caspase substrate, sequence DEVD (SEQ ID NO: 334), is known in the
art.
TABLE-US-00059 TABLE 54 PFIL2-CLIg-HK-antiVegF 306 DEVD (SEQ ID NO:
334) LC (SEQ ID NO: 335)
ggccagtctggccagccgtgttctgagtggcagtcgatggtgcagccgcgttgctattatgggggcggttctgg-
tggcagcggccaaggt
ggccaagacgaagtcgatggcagcggaggaagtagcggcggttctgatattcaactgacccagagcccttcttc-
cctgagtgccagcgtg
ggtgaccgtgttacgatcacttgctcggccagccaagatatttctaactacctgaattggtaccagcagaagcc-
aggaaaggcaccaaaagt
cctgatctacttcacaagttcactgcattccggcgtaccgtcgcgctttagcggttctggcagtggtaccgact-
tcaccctgactatctcgagtc
tgcaacctgaggattttgctacatattactgtcagcaatattcgaccgtgccgtggacgttcgggcagggcacc-
aaagtggagattaagcgta
cggtggctgcaccatctgtcttcatcttcccgccatctgatgagcagttgaaatctggaactgcctctgttgtg-
tgcctgctgaataacttctat
cccagagaggccaaagtacagtggaaggtggataacgccctccaatcgggtaactcccaggagagtgtcacaga-
gcaggacagcaagga
cagcacctacagcctcagcagcaccctgacgctgagcaaagcagactacgagaaacacaaagtctacgcctgcg-
aagtcacccatcagg gcctgagctcgcccgtcacaaagagcttcaacaggggagagtgttag
(SEQ ID NO: 336) Linker MM Linker CM Linker AB
(GQSGQ)(PCSEWQSMVQPRCYYG)(GGSGGSGQGGQ)(DEVDGSGGSS)(GGS)(DIQLTQS
PSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSG
TDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGT
ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYE
KHKVYACEVTHQGLSSPVTKSFNRGEC)
Construction of Legumain and Caspase Activated AA Expression
Vectors
[0511] Substrates were constructed in a two step process. First,
two products were PCR amplified using the CX0325 forward primer
with a substrate specific reverse primer (CX0720 AANL (SEQ ID NO:
361), CX0722 PTNL (SEQ ID NO: 362), CX0724 PTN, and CX0758 DEVD
(SEQ ID NO: 334)), the other PCR amplified using the CX0564 reverse
primer with a substrate specific forward primer (CX0721 AANL (SEQ
ID NO: 361), CX0723 PTNL (SEQ ID NO: 362), CX0725 PTN, and CX0754
DEVD (SEQ ID NO: 334). In both cases the substrate for the PCR was
the anti-VEGF mmp-9 306 scFv. Second, the two products were
combined and PCR amplified using the outside primers CX0325 and
CX0564. The final products were cloned into the pFIL2-CL-anti-VEGF
Lc using the EcoRI and XhoI restriction sites.
TABLE-US-00060 TABLE 55 Primers for Construction of Legumain and
Caspase Activated AA expression Vectors CXO564
aggttgcagactcgagatagtcagggtgaagtc (SEQ ID NO: 337) CX0720
tcctccgctgcccagattagctgcttggccaccttggccgctgccac (SEQ ID NO: 338)
CX0721 gcagctaatctgggcagcggaggaagtagcggcggttctgatattcaactg (SEQ ID
NO: 339) CX0722 tcctccgctgcccagattagtcggttggccaccttggccgctgccac
(SEQ ID NO: 340) CX0723
ccgactaatctgggcagcggaggaagtagcggcggttctgatattcaactg (SEQ ID NO:
341) CX0724 tcctccgctgccaccattagtcggttggccaccttggccgctgccac (SEQ ID
NO: 342) CX0725 ccgactaatggtggcagcggaggaagtagcggcggttctgatattcaactg
(SEQ ID NO: 343) CX0754
gacgaagtcgatggcagcggaggaagtagcggcggttctgatattcaactg (SEQ ID NO:
344) CX0758 tcctccgctgccatcgacttcgtcttggccaccttggccgctgccac (SEQ ID
NO: 345)
Expression and Purification of Legumain Activated AAs
[0512] 3 .mu.g of pFIL-VEGF-HL and 3 .mu.g
pFIL2-306-substrate-VEGF-light were co-transfected into CHO--S
cells (Invitrogen) using Lipofectamine 200 (Invitrogen) according
to manufacturers protocol. Transfected cells were cultured in
Freestyle CHO media (Invitrogen) and selected for resistance to
zeocin and blasticidin. Individual clones were isolated by limiting
dilution and selected for expression of human IgG capable of
binding EGFR by ELISA. All antibodies and AAs are purified by
Protein-A chromatography using standard techniques.
Assay Description for the scFv AA Digest
[0513] ScFv AAs were diluted to 200 nM in assay buffer and combined
with rhLegumain diluted in assay buffer at 2 ug/ml. Digests were
incubated overnight at room temperature. IgG AAs were diluted to
200 nM in assay buffer and combined with rhLegumain diluted in
assay buffer at concentrations form 2-40 mg/mL (final rhLegumain
concentrations 1 ug/ml, 5 ug/ml, 20 ug/ml. Digests were incubated
overnight a 37.degree. C. Following digestion, the extent of
activation was measured by the extent of AA binding to VEGF on
ELISA plates, visualized with anti-human-Fc. FIG. 27 Panel A shows
activation of ScFv AAs containing legumain substrates AANL (SEQ ID
NO: 361) and PTNL (SEQ ID NO: 362) following treatment with 5 mg/mL
legumain. Panel B shows activation of an anti-VEGF IgG AA
containing the legumain substrate PNTL.
In Vivo Stability of Legumain Activated AAs
[0514] Four 12 week old Balb/C mice were each given a single bolus
injection of 100 .mu.g of a plasmin activated AA, AA.sup.PLAsVEGF,
or one of the legumain activated AAs, AA.sup.AANL (SEQ ID NO: 361)
VEGF or AA.sup.PTNL (SEQ ID NO: 362)VEGF. At 15 minutes, 1 day, 3
days, and 7 days following injection, serum was collected. Total AA
concentration was calculated from ELISA measurement of total human
Fc in the serum. The concentration of activated antibody was
calculated from a human VEGF binding ELISA measurement and is shown
in FIG. 28. Legumain activated AAs isolated from serum up to 7 days
following injection remain masked. (n=4). The ratio of activated AA
to total AA at each time point is shown in FIG. 28 as the average
of measurements from individual animals and is expressed as percent
activated. While the plasmin activated AA is nearly completely
activated at 7 days both legumain activated AAs are only minimally
activated.
Example 18
Serum Half Lives of AAs
[0515] FIG. 29 shows that a masked single-chain Fv-Fc fusion
pro-antibodies exhibit increased serum half-life. A masking
polypeptide is appended to an antibody N-terminus such that the
mask can interact with the antibody combining site to increase
thermodynamic stability or block neutralizing antibodies. A
protease substrate can be used to enable removal of the mask at
different rates in serum or specific tissues.
[0516] FIG. 30 shows that the scFv-Fc serum concentration in
healthy mice over 10 days. C57BI/6 mice (n=3 per time point) were
given a single dose (150 ug) of anti-VEGF scFv-Fc, AA .sup.MMPVEGF
(AA 1) or AA .sup.PlasminVEGF (AA 2). Serum was collected at the
indicated times and the concentration of total scFv-Fc was measured
by ELISA. The AA concentration remained stable 7 days post does,
whereas the parent scFv-Fc concentration decreased after 3 days and
was almost undetectable at 10 days.
[0517] FIG. 31 shows that AA scFv-Fc concentrations are elevated
and persist longer in serum compared with parent scFv-Fc in
tumor-bearing mice: An equivalent single dose of anti-VEGF scFv-Fc,
AA .sup.MMPVEGF (AA 1) or AA .sup.PlasminVEGF (AA 2) was given Nude
mice bearing HT29 xenografts (A) or MDA-MB-231 xenografts (B).
Serum was collected at the indicated times and the concentration of
total scFv-Fc was measured by ELISA. In both studies a higher
percentage of the initial AA dose was detected in the serum at 3
days (B) and 3 and 7 days (A).
[0518] FIG. 32 shows that AAs persist at higher concentrations in a
multidose study: Tumor-bearing Balb/c nu/nu mice were injected with
5 mg/kg of parental VEGF scFv-Fc, AA1, 2 or 3 every 3 days. Serum
was collected at the indicated times and the concentration of AA or
parent scFv-Fc was measured by ELISA. All three AAs maintained
significantly higher serum concentrations than the parent
throughout the study.
Amino Acid Sequences of VEGF scFv-Fcs AAs
TABLE-US-00061 TABLE 56 The amino acid sequence of Anti-VEGF
scFv-Fc from which AA scFvs were derived (SEQ ID NO: 346)
DIQLTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSR
FSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGSGGGSGGGSG
GGGSGGGGSGGGGSGEVQLVESGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPG
KGLEWVGWINTYTGEPTYAADFKRRFTFSLDTSKSTAYLQMNSLRAEDTAVYYCAKYP
YYYGTSHWYFDVWGQGTLVTVSGGSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKP
KDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVS
VLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQV
SLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNV
FSCSVMHEGLHNHYTQKSLSLSPGK
TABLE-US-00062 TABLE 57 AA.sup.MMPVEGF: AAs contain a masking
peptide and MMP substrate attached by a short linker as shown (SEQ
ID NO: 347) masking peptide substrate
GQSGQPCSEWQSMVQPRCYYGGGSGGSGQGGQVHMPLGFLGPGGSDIQLTQSPSSLSA
SVGDRVTITCS
ASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQPEDFAT
YYCQQYSTVPWTFGQGTKVEIKGGGSGGGSGGGSGGGGSGGGGSGGGGSGEVQLVES
GGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADF
KRRFTFSLDTSKSTAYLQMNSLRAEDTAVYYCAKYPYYYGTSHWYFDVWGQGTLVTV
SGGSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED
PEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNK
ALPAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQVSLTCLVKGFYPSDIAVEWESNGQ
PENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEGLHNHYTQKSLSLSP GK
TABLE-US-00063 TABLE 58 AA.sup.PLASMINVEGF: AAs contain a masking
peptide and Plasmin substrate attached by a short linker as shown
(SEQ ID NO: 348) masking peptide substrate
GQSGQPCSEWQSMVQPRCYYGGGSGGSGQGGQQGPMFKSLWDGGSDIQLTQSPSSLSA
SVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTL
TISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKGGGGSGGGGSGGGGSGEVQLVESGG
GLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKR
RFTFSLDTSKSTAYLQMNSLRAEDTAVYYCAKYPYYYGTSHWYFDVWGQGTLVTVSG
GSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPE
VKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKAL
PAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQVSLTCLVKGFYPSDIAVEWESNGQPE
NNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEGLHNHYTQKSLSLSPG K
TABLE-US-00064 TABLE 59 AA.sup.NoSubstrateVEGF AAs contain a
masking peptide, Gly Ser (GS) linkers and VEGF but no substrate
attached by a short linker as shown (SEQ ID NO: 349) masking
peptide substrate
PCSEWQSMVQPRCYYGGSGGGSGQSGQGGSGGSGQGGQGSDIQLTQSPSSLSASVGDR
VTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRFSGSGSGTDFTLTISSLQP
EDFATYYCQQYSTVPWTFGQGTKVEIKGGGSGGGSGGGSGGGGSGGGGSGGGGSGEV
QLVESGGGLVQPGGSLRLSCAASGYDFTHYGMNWVRQAPGKGLEWVGWINTYTGEPT
YAADFKRRFTFSLDTSKSTAYLQMNSLRAEDTAVYYCAKYPYYYGTSHWYFDVWGQG
TLVTVSGGSGAMVRSDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVD
VSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKC
KVSNKALPAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQVSLTCLVKGFYPSDIAVEW
ESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEGLHNHYTQK
SLSLSPGK
AAs Exhibit Increased Serum Half-Life as Compared to the Parental
Antibody
[0519] Eight 12 week old Balb/C mice were each given a single bolus
injection of 100 .mu.g of a MMP activated AA, AA.sup.MMPVEGF, a
Plasmin activated AA, AA.sup.PLAsVEGF or parental anti-VEGF
antibody Ab-VEGF. At 15 minutes, 8 hours, 1 day, 3 days, 7 days and
10 days following injection, serum was collected. Total AA
concentration was calculated from ELISA measurement of total human
Fc in the serum. The concentration of total AA at each time point
is shown in FIG. 33 as the average of measurements from individual
animals and is expressed as percent of initial dose. The AAs and
parental antibody distribute similarly and as expected. Reaching a
high and equal concentration at 15 minutes and distributing into
the tissues over the first day. In contrast to the parental
antibody which is nearly completely eliminated over 10 days, both
AAs persist at higher levels in the serum for the duration of the
experiment.
Example 19
Reduction in Side Effects Upon Administration of an AA
[0520] Greater than 80% of the patients typically administered a
conventional EGFR antibody therapeutic exhibit toxicity of the
skin, the largest organ of the body. When patients are administered
AAs directed against EGFR it is expected that there will be little
or no toxicity of the skin, as the AA will not be activated in the
skin, due to lack of disease specific CM. As such, it is expected
that the anti-EGFR AB of the AA will not be able to specifically
bind the EGFR target. Additionally it is expected that in such
patients, because the AA will not be active in the skin, the AA
will not be sequestered and it is expected that the serum levels of
the AA will remain high, thereby increasing the concentration of
the AA in the diseased tissue, effectively raising the effective
dose. Hydrolysis of the CM in the diseased tissue based on the
disease environment will lead to an activated AA allowing for
unmasking and specific binding of the AB to the EGFR target, and
will lead to the desired therapeutic effect.
[0521] While the present invention has been described with
reference to the specific embodiments thereof, it should be
understood by those skilled in the art that various changes may be
made and equivalents may be substituted without departing from the
true spirit and scope of the invention. In addition, many
modifications may be made to adapt a particular situation,
material, composition of matter, process, process step or steps, to
the objective, spirit and scope of the present invention. All such
modifications are intended to be within the scope of the claims
appended hereto.
Sequence CWU 1
1
37617PRTArtificial SequenceSynthetic consensus peptide 1Cys Ile Ser
Pro Arg Gly Cys 1 5 218PRTArtificial SequenceSynthetic consensus
peptide 2Cys Xaa His Xaa Xaa Xaa Xaa Xaa Cys Gly Cys Ile Ser Pro
Arg Gly 1 5 10 15 Cys Gly 314PRTArtificial SequenceSynthetic
consensus peptide 3Xaa Cys Xaa Xaa Tyr Gln Cys Leu Xaa Xaa Xaa Xaa
Xaa Xaa 1 5 10 411PRTArtificial SequenceSynthetic consensus peptide
4Xaa Xaa Gln Pro Xaa Pro Pro Arg Val Xaa Xaa 1 5 10
512PRTArtificial SequenceSynthetic consensus peptide 5Pro Xaa Pro
Gly Phe Pro Tyr Cys Xaa Xaa Xaa Xaa 1 5 10 611PRTArtificial
SequenceSynthetic consensus peptide 6Xaa Xaa Xaa Xaa Gln Xaa Xaa
Pro Trp Pro Pro 1 5 10 717PRTArtificial SequenceSynthetic consensus
peptide 7Gly Xaa Gly Xaa Cys Tyr Thr Ile Leu Glu Xaa Xaa Cys Xaa
Xaa Xaa1 5 10 15 Arg 817PRTArtificial SequenceSynthetic consensus
peptide 8Gly Xaa Xaa Xaa Cys Tyr Xaa Ile Xaa Glu Xaa Xaa Cys Xaa
Xaa Xaa 1 5 10 15 Xaa 917PRTArtificial SequenceSynthetic consensus
peptide 9Gly Xaa Xaa Xaa Cys Tyr Xaa Ile Xaa Glu Xaa Trp Cys Xaa
Xaa Xaa 1 5 10 15 Xaa 1017PRTArtificial SequenceSynthetic consensus
peptide 10Xaa Xaa Xaa Cys Cys Xaa Xaa Tyr Xaa Ile Xaa Xaa Cys Cys
Xaa Xaa 1 5 10 15 Xaa 1115PRTArtificial SequenceSynthetic consensus
peptide 11Xaa Xaa Xaa Xaa Xaa Tyr Xaa Ile Leu Glu Xaa Xaa Xaa Xaa
Xaa 1 5 10 15 125PRTArtificial SequenceSynthetic peptide 12Gly Ser
Gly Gly Ser 1 5 134PRTArtificial SequenceSynthetic peptide 13Gly
Gly Gly Ser 1 144PRTArtificial SequenceSynthetic peptide 14Gly Gly
Ser Gly 1 155PRTArtificial SequenceSynthetic peptide 15Gly Gly Ser
Gly Gly 1 5 165PRTArtificial SequenceSynthetic peptide 16Gly Ser
Gly Ser Gly 1 5 175PRTArtificial SequenceSynthetic peptide 17Gly
Ser Gly Gly Gly 1 5 185PRTArtificial SequenceSynthetic peptide
18Gly Gly Gly Ser Gly 1 5 195PRTArtificial SequenceSynthetic
peptide 19Gly Ser Ser Ser Gly 1 5 208PRTUnknownPro-urokinase
peptide 20Pro Arg Phe Lys Ile Ile Gly Gly 1 5
218PRTUnknownPro-urokinase peptide 21Pro Arg Phe Arg Ile Ile Gly
Gly 1 5 229PRTUnknownTGFbeta peptide 22Ser Ser Arg His Arg Arg Ala
Leu Asp 1 5 2314PRTUnknownPlasminogen peptide 23Arg Lys Ser Ser Ile
Ile Ile Arg Met Arg Asp Val Val Leu 1 5 10
2415PRTUnknownStaphylokinase peptide 24Ser Ser Ser Phe Asp Lys Gly
Lys Tyr Lys Lys Gly Asp Asp Ala 1 5 10 15
2515PRTUnknownStaphylokinase peptide 25Ser Ser Ser Phe Asp Lys Gly
Lys Tyr Lys Arg Gly Asp Asp Ala 1 5 10 15 264PRTUnknownFactor Xa
cleavable peptide 26Ile Glu Gly Arg 1 274PRTUnknownFactor Xa
cleavable peptide 27Ile Asp Gly Arg 1 287PRTUnknownFactor Xa
cleavable peptide 28Gly Gly Ser Ile Asp Gly Arg 1 5
296PRTUnknownGelatinase A peptide 29Pro Leu Gly Leu Trp Ala 1 5
308PRTBos sp. 30Gly Pro Gln Gly Ile Ala Gly Gln 1 5 318PRTBos sp.
31Gly Pro Gln Gly Leu Leu Gly Ala 1 5 325PRTBos sp. 32Gly Ile Ala
Gly Gln 1 5 338PRTHomo sapiens 33Gly Pro Leu Gly Ile Ala Gly Ile 1
5 348PRTHomo sapiens 34Gly Pro Glu Gly Leu Arg Val Gly 1 5
358PRTHomo sapiens 35Tyr Gly Ala Gly Leu Gly Val Val 1 5 368PRTHomo
sapiens 36Ala Gly Leu Gly Val Val Glu Arg 1 5 378PRTHomo sapiens
37Ala Gly Leu Gly Ile Ser Ser Thr 1 5 388PRTRattus sp. 38Glu Pro
Gln Ala Leu Ala Met Ser 1 5 398PRTRattus sp. 39Gln Ala Leu Ala Met
Ser Ala Ile 1 5 408PRTRattus sp. 40Ala Ala Tyr His Leu Val Ser Gln
1 5 418PRTRattus sp. 41Met Asp Ala Phe Leu Glu Ser Ser 1 5
428PRTRattus sp. 42Glu Ser Leu Pro Val Val Ala Val 1 5 438PRTRattus
sp. 43Ser Ala Pro Ala Val Glu Ser Glu 1 5 448PRTHomo sapiens 44Asp
Val Ala Gln Phe Val Leu Thr 1 5 458PRTHomo sapiens 45Val Ala Gln
Phe Val Leu Thr Glu 1 5 468PRTHomo sapiens 46Ala Gln Phe Val Leu
Thr Glu Gly 1 5 478PRTHomo sapiens 47Pro Val Gln Pro Ile Gly Pro
Gln 1 5 486PRTArtificial SequenceSynthetic 6xHis tag 48His His His
His His His 1 5 49735DNAArtificial SequenceSynthetic polynucleotide
49gatattcaac tgacccagag cccttcttcc ctgagtgcca gcgtgggtga ccgtgttacg
60atcacttgct cggccagcca agatatttct aactacctga attggtacca gcagaagcca
120ggaaaggcac caaaagtcct gatctacttc acaagttcac tgcattccgg
cgtaccgtcg 180cgctttagcg gttctggcag tggtaccgac ttcaccctga
ctatctcgag tctgcaacct 240gaggattttg ctacatatta ctgtcagcaa
tattcgaccg tgccgtggac gttcgggcag 300ggcaccaaag tggagattaa
ggggggtgga ggcagcgggg gaggtggctc aggcggtgga 360gggtctggcg
aggtccagct ggtagaaagc gggggcggac tggtccaacc gggcggatcc
420ctgcgtctga gctgcgcggc ctcgggttac gactttactc actacggaat
gaactgggtt 480cgccaagccc ctggtaaagg tctggaatgg gtcggatgga
ttaatacata cactggagaa 540cctacttatg ctgctgattt caaacgtcgc
tttactttct ctctggatac aagtaagtca 600accgcctatc tgcaaatgaa
cagcctgcgt gcagaggaca cggctgtgta ctattgtgcg 660aaatatcctt
attattatgg aacttcccac tggtatttcg atgtatgggg ccagggtact
720ctggttacag tgtcg 73550245PRTArtificial SequenceSynthetic
polypeptide 50Asp Ile Gln Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala
Ser Val Gly 1 5 10 15 Asp Arg Val Thr Ile Thr Cys Ser Ala Ser Gln
Asp Ile Ser Asn Tyr 20 25 30 Leu Asn Trp Tyr Gln Gln Lys Pro Gly
Lys Ala Pro Lys Val Leu Ile 35 40 45 Tyr Phe Thr Ser Ser Leu His
Ser Gly Val Pro Ser Arg Phe Ser Gly 50 55 60 Ser Gly Ser Gly Thr
Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro 65 70 75 80 Glu Asp Phe
Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp 85 90 95 Thr
Phe Gly Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser 100 105
110 Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val
115 120 125 Glu Ser Gly Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg
Leu Ser 130 135 140 Cys Ala Ala Ser Gly Tyr Asp Phe Thr His Tyr Gly
Met Asn Trp Val 145 150 155 160 Arg Gln Ala Pro Gly Lys Gly Leu Glu
Trp Val Gly Trp Ile Asn Thr 165 170 175 Tyr Thr Gly Glu Pro Thr Tyr
Ala Ala Asp Phe Lys Arg Arg Phe Thr 180 185 190 Phe Ser Leu Asp Thr
Ser Lys Ser Thr Ala Tyr Leu Gln Met Asn Ser 195 200 205 Leu Arg Ala
Glu Asp Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr 210 215 220 Tyr
Tyr Gly Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr 225 230
235 240 Leu Val Thr Val Ser 245 5117PRTArtificial SequenceSynthetic
peptide 51Ala Thr Ala Val Trp Asn Ser Met Val Lys Gln Ser Cys Tyr
Met Gln 1 5 10 15 Gly 5217PRTArtificial SequenceSynthetic peptide
52Gly His Gly Met Cys Tyr Thr Ile Leu Glu Asp His Cys Asp Arg Val 1
5 10 15 Arg 5317PRTArtificial SequenceSynthetic peptide 53Pro Cys
Ser Glu Trp Gln Ser Met Val Gln Pro Arg Cys Tyr Tyr Gly 1 5 10 15
Gly 5417PRTArtificial SequenceSynthetic peptide 54Asn Val Glu Cys
Cys Gln Asn Tyr Asn Leu Trp Asn Cys Cys Gly Gly 1 5 10 15 Arg
5515PRTArtificial SequenceSynthetic peptide 55Val His Ala Trp Glu
Gln Leu Val Ile Gln Glu Leu Tyr His Cys 1 5 10 15 5617PRTArtificial
SequenceSynthetic peptide 56Gly Val Gly Leu Cys Tyr Thr Ile Leu Glu
Gln Trp Cys Glu Met Gly 1 5 10 15 Arg 5717PRTArtificial
SequenceSynthetic peptide 57Arg Pro Pro Cys Cys Arg Asp Tyr Ser Ile
Leu Glu Cys Cys Lys Ser 1 5 10 15 Asp 5817PRTArtificial
SequenceSynthetic peptide 58Gly Ala Met Ala Cys Tyr Asn Ile Phe Glu
Tyr Trp Cys Ser Ala Met 1 5 10 15 Lys 5937DNAArtificial
SequenceSynthetic primer 59gaattcatgg gccatcacca tcaccatcac ggtgggg
376043DNAArtificial SequenceSynthetic primer 60gtgagtaagc
ttttattacg acactgtaac cagagtaccc tgg 436171DNAArtificial
SequenceSynthetic primer 61gtggcatgtg cacttggcca ccttggccca
ctcgagctgg ccagactggc cctgaaaata 60cagattttcc c 716281DNAArtificial
SequenceSynthetic primer 62gagtgggcca aggtggccaa gtgcacatgc
cactgggctt cctgggtccg ggcggttctg 60atattcaact gacccagagc c
816340DNAArtificial SequenceSynthetic primer 63ttcgagctcg
aacaacaaca acaataacaa taacaacaac 406440DNAArtificial
SequenceSynthetic primer 64gctttcaccg caggtacttc cgtagctggc
cagtctggcc 406540DNAArtificial SequenceSynthetic primer
65cgctccatgg gccaccttgg ccgctgccac cagaaccgcc 406640DNAArtificial
SequenceSynthetic primer 66gcccagccgg ccatggccgg ccagtctggc
cagctcgagt 406762DNAArtificial SequenceSynthetic primer
67ccagtgccaa gcttttagtg gtgatggtga tgatgcgaca ctgtaaccag agtaccctgg
60cc 626837DNAArtificial SequenceSynthetic primer 68cttgtcacga
attcgggcca gtctggccag ctcgagt 376952DNAArtificial SequenceSynthetic
primer 69cagatctaac catggcgccg ctaccgcccg acactgtaac cagagtaccc tg
5270860DNAArtificial SequenceSynthetic polynucleotide 70atgggccatc
accatcacca tcacggtggg gaaaatctgt attttcaggg ccagtctggc 60cagctcgagt
gggccaaggt ggccaagtgc acatgccact gggcttcctg ggtccgggcg
120gttctgatat tcaactgacc cagagccctt cttccctgag tgccagcgtg
ggtgaccgtg 180ttacgatcac ttgctcggcc agccaagata tttctaacta
cctgaattgg taccagcaga 240agccaggaaa ggcaccaaaa gtcctgatct
acttcacaag ttcactgcat tccggcgtac 300cgtcgcgctt tagcggttct
ggcagtggta ccgacttcac cctgactatc tcgagtctgc 360aacctgagga
ttttgctaca tattactgtc agcaatattc gaccgtgccg tggacgttcg
420ggcagggcac caaagtggag attaaggggg gtggaggcag cgggggaggt
ggctcaggcg 480gtggagggtc tggcgaggtc cagctggtag aaagcggggg
cggactggtc caaccgggcg 540gatccctgcg tctgagctgc gcggcctcgg
gttacgactt tactcactac ggaatgaact 600gggttcgcca agcccctggt
aaaggtctgg aatgggtcgg atggattaat acatacactg 660gagaacctac
ttatgctgct gatttcaaac gtcgctttac tttctctctg gatacaagta
720agtcaaccgc ctatctgcaa atgaacagcc tgcgtgcaga ggacacggct
gtgtactatt 780gtgcgaaata tccttattat tatggaactt cccactggta
tttcgatgta tggggccagg 840gtactctggt tacagtgtcg
86071918DNAArtificial SequenceSynthetic polynucleotide 71atgggccatc
accatcacca tcacggtggg gaaaatctgt attttcaggg ccagtctggc 60cagccgtgtt
ctgagtggca gtcgatggtg cagccgcgtt gctattatgg gggcggttct
120ggtggcagcg gccaaggtgg ccaagtgcac atgccactgg gcttcctggg
tccgggcggt 180tctgatattc aactgaccca gagcccttct tccctgagtg
ccagcgtggg tgaccgtgtt 240acgatcactt gctcggccag ccaagatatt
tctaactacc tgaattggta ccagcagaag 300ccaggaaagg caccaaaagt
cctgatctac ttcacaagtt cactgcattc cggcgtaccg 360tcgcgcttta
gcggttctgg cagtggtacc gacttcaccc tgactatctc gagtctgcaa
420cctgaggatt ttgctacata ttactgtcag caatattcga ccgtgccgtg
gacgttcggg 480cagggcacca aagtggagat taaggggggt ggaggcagcg
ggggaggtgg ctcaggcggt 540ggagggtctg gcgaggtcca gctggtagaa
agcgggggcg gactggtcca accgggcgga 600tccctgcgtc tgagctgcgc
ggcctcgggt tacgacttta ctcactacgg aatgaactgg 660gttcgccaag
cccctggtaa aggtctggaa tgggtcggat ggattaatac atacactgga
720gaacctactt atgctgctga tttcaaacgt cgctttactt tctctctgga
tacaagtaag 780tcaaccgcct atctgcaaat gaacagcctg cgtgcagagg
acacggctgt gtactattgt 840gcgaaatatc cttattatta tggaacttcc
cactggtatt tcgatgtatg gggccagggt 900actctggtta cagtgtcg
91872306PRTArtificial SequenceSynthetic polypeptide 72Met Gly His
His His His His His Gly Gly Glu Asn Leu Tyr Phe Gln 1 5 10 15 Gly
Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 20 25
30 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln
35 40 45 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp
Ile Gln 50 55 60 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val
Gly Asp Arg Val 65 70 75 80 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile
Ser Asn Tyr Leu Asn Trp 85 90 95 Tyr Gln Gln Lys Pro Gly Lys Ala
Pro Lys Val Leu Ile Tyr Phe Thr 100 105 110 Ser Ser Leu His Ser Gly
Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 115 120 125 Gly Thr Asp Phe
Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 130 135 140 Ala Thr
Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 145 150 155
160 Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly Gly
165 170 175 Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu
Ser Gly 180 185 190 Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu
Ser Cys Ala Ala 195 200 205 Ser Gly Tyr Asp Phe Thr His Tyr Gly Met
Asn Trp Val Arg Gln Ala 210 215 220 Pro Gly Lys Gly Leu Glu Trp Val
Gly Trp Ile Asn Thr Tyr Thr Gly 225 230 235 240 Glu Pro Thr Tyr Ala
Ala Asp Phe Lys Arg Arg Phe Thr Phe Ser Leu 245 250 255 Asp Thr Ser
Lys Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg Ala 260 265 270 Glu
Asp Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr Gly 275 280
285 Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val Thr
290 295 300 Val Ser 305 73921DNAArtificial SequenceSynthetic
polynucleotide 73atgggccatc accatcacca tcacggtggg gaaaatctgt
attttcaggg ccagtctggc 60cagcggccgc cgtgttgccg tgattatagt attttggagt
gctgtaagag tgatggcggt 120tctggtggca gcggccaagg tggccaagtg
cacatgccac tgggcttcct gggtccgggc 180ggttctgata ttcaactgac
ccagagccct tcttccctga gtgccagcgt gggtgaccgt 240gttacgatca
cttgctcggc cagccaagat atttctaact acctgaattg gtaccagcag
300aagccaggaa aggcaccaaa agtcctgatc tacttcacaa gttcactgca
ttccggcgta 360ccgtcgcgct ttagcggttc tggcagtggt accgacttca
ccctgactat ctcgagtctg 420caacctgagg attttgctac atattactgt
cagcaatatt cgaccgtgcc gtggacgttc 480gggcagggca ccaaagtgga
gattaagggg ggtggaggca gcgggggagg tggctcaggc 540ggtggagggt
ctggcgaggt ccagctggta gaaagcgggg gcggactggt ccaaccgggc
600ggatccctgc gtctgagctg cgcggcctcg ggttacgact ttactcacta
cggaatgaac 660tgggttcgcc aagcccctgg taaaggtctg gaatgggtcg
gatggattaa tacatacact 720ggagaaccta cttatgctgc tgatttcaaa
cgtcgcttta ctttctctct ggatacaagt 780aagtcaaccg cctatctgca
aatgaacagc ctgcgtgcag aggacacggc tgtgtactat 840tgtgcgaaat
atccttatta ttatggaact tcccactggt atttcgatgt atggggccag
900ggtactctgg ttacagtgtc g 92174307PRTArtificial SequenceSynthetic
polypeptide 74Met Gly His His His His His His Gly Gly Glu Asn Leu
Tyr Phe Gln 1 5 10 15 Gly Gln Ser Gly Gln Arg Pro Pro Cys Cys Arg
Asp Tyr Ser Ile Leu 20 25 30 Glu Cys Cys Lys Ser Asp Gly Gly Ser
Gly Gly Ser Gly Gln Gly Gly 35 40 45 Gln Val His Met Pro Leu Gly
Phe Leu Gly Pro Gly Gly Ser Asp Ile 50 55 60 Gln Leu Thr Gln Ser
Pro Ser Ser Leu Ser Ala Ser Val Gly Asp Arg 65 70 75 80 Val Thr Ile
Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn 85 90 95 Trp
Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr Phe 100 105
110 Thr Ser
Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly 115 120 125
Ser Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp 130
135 140 Phe Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr
Phe 145 150 155 160 Gly Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly
Gly Ser Gly Gly 165 170 175 Gly Gly Ser Gly Gly Gly Gly Ser Gly Glu
Val Gln Leu Val Glu Ser 180 185 190 Gly Gly Gly Leu Val Gln Pro Gly
Gly Ser Leu Arg Leu Ser Cys Ala 195 200 205 Ala Ser Gly Tyr Asp Phe
Thr His Tyr Gly Met Asn Trp Val Arg Gln 210 215 220 Ala Pro Gly Lys
Gly Leu Glu Trp Val Gly Trp Ile Asn Thr Tyr Thr 225 230 235 240 Gly
Glu Pro Thr Tyr Ala Ala Asp Phe Lys Arg Arg Phe Thr Phe Ser 245 250
255 Leu Asp Thr Ser Lys Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg
260 265 270 Ala Glu Asp Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr
Tyr Tyr 275 280 285 Gly Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln
Gly Thr Leu Val 290 295 300 Thr Val Ser 305 75888DNAArtificial
SequenceSynthetic polynucleotide 75ggccagtctg gccagccgtg ttctgagtgg
cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag cggccaaggt
ggccaagtgc acatgccact gggcttcctg 120ggtccgggcg gttctgatat
tcaactgacc cagagccctt cttccctgag tgccagcgtg 180ggtgaccgtg
ttacgatcac ttgctcggcc agccaagata tttctaacta cctgaattgg
240taccagcaga agccaggaaa ggcaccaaaa gtcctgatct acttcacaag
ttcactgcat 300tccggcgtac cgtcgcgctt tagcggttct ggcagtggta
ccgacttcac cctgactatc 360tcgagtctgc aacctgagga ttttgctaca
tattactgtc agcaatattc gaccgtgccg 420tggacgttcg ggcagggcac
caaagtggag attaaggggg gtggaggcag cgggggaggt 480ggctcaggcg
gtggagggtc tggcgaggtc cagctggtag aaagcggggg cggactggtc
540caaccgggcg gatccctgcg tctgagctgc gcggcctcgg gttacgactt
tactcactac 600ggaatgaact gggttcgcca agcccctggt aaaggtctgg
aatgggtcgg atggattaat 660acatacactg gagaacctac ttatgctgct
gatttcaaac gtcgctttac tttctctctg 720gatacaagta agtcaaccgc
ctatctgcaa atgaacagcc tgcgtgcaga ggacacggct 780gtgtactatt
gtgcgaaata tccttattat tatggaactt cccactggta tttcgatgta
840tggggccagg gtactctggt tacagtgtcg catcatcacc atcaccac
88876296PRTArtificial SequenceSynthetic polypeptide 76Gly Gln Ser
Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg
Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25
30 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp Ile Gln
35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp
Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn
Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys
Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro
Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu
Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr
Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly
Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly Gly 145 150 155
160 Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu Ser Gly
165 170 175 Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu Ser Cys
Ala Ala 180 185 190 Ser Gly Tyr Asp Phe Thr His Tyr Gly Met Asn Trp
Val Arg Gln Ala 195 200 205 Pro Gly Lys Gly Leu Glu Trp Val Gly Trp
Ile Asn Thr Tyr Thr Gly 210 215 220 Glu Pro Thr Tyr Ala Ala Asp Phe
Lys Arg Arg Phe Thr Phe Ser Leu 225 230 235 240 Asp Thr Ser Lys Ser
Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg Ala 245 250 255 Glu Asp Thr
Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr Gly 260 265 270 Thr
Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val Thr 275 280
285 Val Ser His His His His His His 290 295 77894DNAArtificial
SequenceSynthetic polynucleotide 77ggccagtctg gccagcggcc gccgtgttgc
cgtgattata gtattttgga gtgctgtaag 60agtgatggcg gttctggtgg cagcggccaa
ggtggccaag tgcacatgcc actgggcttc 120ctgggtccgg gcggttctga
tattcaactg acccagagcc cttcttccct gagtgccagc 180gtgggtgacc
gtgttacgat cacttgctcg gccagccaag atatttctaa ctacctgaat
240tggtaccagc agaagccagg aaaggcacca aaagtcctga tctacttcac
aagttcactg 300cattccggcg taccgtcgcg ctttagcggt tctggcagtg
gtaccgactt caccctgact 360atctcgagtc tgcaacctga ggattttgct
acatattact gtcagcaata ttcgaccgtg 420ccgtggacgt tcgggcaggg
caccaaagtg gagattaagg ggggtggagg cagcggggga 480ggtggctcag
gcggtggagg gtctggcgag gtccagctgg tagaaagcgg gggcggactg
540gtccaaccgg gcggatccct gcgtctgagc tgcgcggcct cgggttacga
ctttactcac 600tacggaatga actgggttcg ccaagcccct ggtaaaggtc
tggaatgggt cggatggatt 660aatacataca ctggagaacc tacttatgct
gctgatttca aacgtcgctt tactttctct 720ctggatacaa gtaagtcaac
cgcctatctg caaatgaaca gcctgcgtgc agaggacacg 780gctgtgtact
attgtgcgaa atatccttat tattatggaa cttcccactg gtatttcgat
840gtatggggcc agggtactct ggttacagtg tcgcatcatc accatcacca ctaa
89478297PRTArtificial SequenceSynthetic polypeptide 78Gly Gln Ser
Gly Gln Arg Pro Pro Cys Cys Arg Asp Tyr Ser Ile Leu 1 5 10 15 Glu
Cys Cys Lys Ser Asp Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly 20 25
30 Gln Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp Ile
35 40 45 Gln Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly
Asp Arg 50 55 60 Val Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser
Asn Tyr Leu Asn 65 70 75 80 Trp Tyr Gln Gln Lys Pro Gly Lys Ala Pro
Lys Val Leu Ile Tyr Phe 85 90 95 Thr Ser Ser Leu His Ser Gly Val
Pro Ser Arg Phe Ser Gly Ser Gly 100 105 110 Ser Gly Thr Asp Phe Thr
Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp 115 120 125 Phe Ala Thr Tyr
Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe 130 135 140 Gly Gln
Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly 145 150 155
160 Gly Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu Ser
165 170 175 Gly Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu Ser
Cys Ala 180 185 190 Ala Ser Gly Tyr Asp Phe Thr His Tyr Gly Met Asn
Trp Val Arg Gln 195 200 205 Ala Pro Gly Lys Gly Leu Glu Trp Val Gly
Trp Ile Asn Thr Tyr Thr 210 215 220 Gly Glu Pro Thr Tyr Ala Ala Asp
Phe Lys Arg Arg Phe Thr Phe Ser 225 230 235 240 Leu Asp Thr Ser Lys
Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg 245 250 255 Ala Glu Asp
Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr 260 265 270 Gly
Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val 275 280
285 Thr Val Ser His His His His His His 290 295 791578DNAArtificial
SequenceSynthetic polynucleotide 79ggccagtctg gccagccgtg ttctgagtgg
cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag cggccaaggt
ggccaagtgc acatgccact gggcttcctg 120ggtccgggcg gttctgatat
tcaactgacc cagagccctt cttccctgag tgccagcgtg 180ggtgaccgtg
ttacgatcac ttgctcggcc agccaagata tttctaacta cctgaattgg
240taccagcaga agccaggaaa ggcaccaaaa gtcctgatct acttcacaag
ttcactgcat 300tccggcgtac cgtcgcgctt tagcggttct ggcagtggta
ccgacttcac cctgactatc 360tcgagtctgc aacctgagga ttttgctaca
tattactgtc agcaatattc gaccgtgccg 420tggacgttcg ggcagggcac
caaagtggag attaaggggg gtggaggcag cgggggaggt 480ggctcaggcg
gtggagggtc tggcgaggtc cagctggtag aaagcggggg cggactggtc
540caaccgggcg gatccctgcg tctgagctgc gcggcctcgg gttacgactt
tactcactac 600ggaatgaact gggttcgcca agcccctggt aaaggtctgg
aatgggtcgg atggattaat 660acatacactg gagaacctac ttatgctgct
gatttcaaac gtcgctttac tttctctctg 720gatacaagta agtcaaccgc
ctatctgcaa atgaacagcc tgcgtgcaga ggacacggct 780gtgtactatt
gtgcgaaata tccttattat tatggaactt cccactggta tttcgatgta
840tggggccagg gtactctggt tacagtgtcg ggcggtagcg gcgccatggt
tagatctgac 900aaaactcaca catgcccacc gtgcccagca cctgaactcc
tggggggacc gtcagtcttc 960ctcttccccc caaaacccaa ggacaccctc
atgatctccc ggacccctga ggtcacatgc 1020gtggtggtgg acgtgagcca
cgaagaccct gaggtcaagt tcaactggta cgtggacggc 1080gtggaggtgc
ataatgccaa gacaaagccg cgggaggagc agtacaacag cacgtaccgt
1140gtggtcagcg tcctcaccgt cctgcaccag gactggctga atggcaagga
gtacaagtgc 1200aaggtctcca acaaagccct cccagccccc atcgagaaaa
ccatctccaa agccaaaggg 1260cagccccgag aaccacaggt gtacaccctg
cccccatccc gggaggagat gaccaagaac 1320caggtcagcc tgacctgcct
ggtcaaaggc ttctatccca gcgacatcgc cgtggagtgg 1380gagagcaatg
ggcagccgga gaacaactac aagaccacgc ctcccgtgct ggactccgac
1440ggctccttct tcctctacag caagctcacc gtggacaaga gcaggtggca
gcaggggaac 1500gtcttctcat gctccgtgat gcatgagggt ctgcacaacc
actacacgca gaagagcctc 1560tccctgtctc cgggtaaa
157880526PRTArtificial SequenceSynthetic polypeptide 80Gly Gln Ser
Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg
Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25
30 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp Ile Gln
35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp
Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn
Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys
Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro
Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu
Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr
Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly
Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly Gly 145 150 155
160 Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu Ser Gly
165 170 175 Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu Ser Cys
Ala Ala 180 185 190 Ser Gly Tyr Asp Phe Thr His Tyr Gly Met Asn Trp
Val Arg Gln Ala 195 200 205 Pro Gly Lys Gly Leu Glu Trp Val Gly Trp
Ile Asn Thr Tyr Thr Gly 210 215 220 Glu Pro Thr Tyr Ala Ala Asp Phe
Lys Arg Arg Phe Thr Phe Ser Leu 225 230 235 240 Asp Thr Ser Lys Ser
Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg Ala 245 250 255 Glu Asp Thr
Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr Gly 260 265 270 Thr
Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val Thr 275 280
285 Val Ser Gly Gly Ser Gly Ala Met Val Arg Ser Asp Lys Thr His Thr
290 295 300 Cys Pro Pro Cys Pro Ala Pro Glu Leu Leu Gly Gly Pro Ser
Val Phe 305 310 315 320 Leu Phe Pro Pro Lys Pro Lys Asp Thr Leu Met
Ile Ser Arg Thr Pro 325 330 335 Glu Val Thr Cys Val Val Val Asp Val
Ser His Glu Asp Pro Glu Val 340 345 350 Lys Phe Asn Trp Tyr Val Asp
Gly Val Glu Val His Asn Ala Lys Thr 355 360 365 Lys Pro Arg Glu Glu
Gln Tyr Asn Ser Thr Tyr Arg Val Val Ser Val 370 375 380 Leu Thr Val
Leu His Gln Asp Trp Leu Asn Gly Lys Glu Tyr Lys Cys 385 390 395 400
Lys Val Ser Asn Lys Ala Leu Pro Ala Pro Ile Glu Lys Thr Ile Ser 405
410 415 Lys Ala Lys Gly Gln Pro Arg Glu Pro Gln Val Tyr Thr Leu Pro
Pro 420 425 430 Ser Arg Glu Glu Met Thr Lys Asn Gln Val Ser Leu Thr
Cys Leu Val 435 440 445 Lys Gly Phe Tyr Pro Ser Asp Ile Ala Val Glu
Trp Glu Ser Asn Gly 450 455 460 Gln Pro Glu Asn Asn Tyr Lys Thr Thr
Pro Pro Val Leu Asp Ser Asp 465 470 475 480 Gly Ser Phe Phe Leu Tyr
Ser Lys Leu Thr Val Asp Lys Ser Arg Trp 485 490 495 Gln Gln Gly Asn
Val Phe Ser Cys Ser Val Met His Glu Gly Leu His 500 505 510 Asn His
Tyr Thr Gln Lys Ser Leu Ser Leu Ser Pro Gly Lys 515 520 525
811581DNAArtificial SequenceSynthetic polynucleotide 81ggccagtctg
gccagcggcc gccgtgttgc cgtgattata gtattttgga gtgctgtaag 60agtgatggcg
gttctggtgg cagcggccaa ggtggccaag tgcacatgcc actgggcttc
120ctgggtccgg gcggttctga tattcaactg acccagagcc cttcttccct
gagtgccagc 180gtgggtgacc gtgttacgat cacttgctcg gccagccaag
atatttctaa ctacctgaat 240tggtaccagc agaagccagg aaaggcacca
aaagtcctga tctacttcac aagttcactg 300cattccggcg taccgtcgcg
ctttagcggt tctggcagtg gtaccgactt caccctgact 360atctcgagtc
tgcaacctga ggattttgct acatattact gtcagcaata ttcgaccgtg
420ccgtggacgt tcgggcaggg caccaaagtg gagattaagg ggggtggagg
cagcggggga 480ggtggctcag gcggtggagg gtctggcgag gtccagctgg
tagaaagcgg gggcggactg 540gtccaaccgg gcggatccct gcgtctgagc
tgcgcggcct cgggttacga ctttactcac 600tacggaatga actgggttcg
ccaagcccct ggtaaaggtc tggaatgggt cggatggatt 660aatacataca
ctggagaacc tacttatgct gctgatttca aacgtcgctt tactttctct
720ctggatacaa gtaagtcaac cgcctatctg caaatgaaca gcctgcgtgc
agaggacacg 780gctgtgtact attgtgcgaa atatccttat tattatggaa
cttcccactg gtatttcgat 840gtatggggcc agggtactct ggttacagtg
tcgggcggta gcggcgccat ggttagatct 900gacaaaactc acacatgccc
accgtgccca gcacctgaac tcctgggggg accgtcagtc 960ttcctcttcc
ccccaaaacc caaggacacc ctcatgatct cccggacccc tgaggtcaca
1020tgcgtggtgg tggacgtgag ccacgaagac cctgaggtca agttcaactg
gtacgtggac 1080ggcgtggagg tgcataatgc caagacaaag ccgcgggagg
agcagtacaa cagcacgtac 1140cgtgtggtca gcgtcctcac cgtcctgcac
caggactggc tgaatggcaa ggagtacaag 1200tgcaaggtct ccaacaaagc
cctcccagcc cccatcgaga aaaccatctc caaagccaaa 1260gggcagcccc
gagaaccaca ggtgtacacc ctgcccccat cccgggagga gatgaccaag
1320aaccaggtca gcctgacctg cctggtcaaa ggcttctatc ccagcgacat
cgccgtggag 1380tgggagagca atgggcagcc ggagaacaac tacaagacca
cgcctcccgt gctggactcc 1440gacggctcct tcttcctcta cagcaagctc
accgtggaca agagcaggtg gcagcagggg 1500aacgtcttct catgctccgt
gatgcatgag ggtctgcaca accactacac gcagaagagc 1560ctctccctgt
ctccgggtaa a 158182527PRTArtificial SequenceSynthetic polypeptide
82Gly Gln Ser Gly Gln Arg Pro Pro Cys Cys Arg Asp Tyr Ser Ile Leu 1
5 10 15 Glu Cys Cys Lys Ser Asp Gly Gly Ser Gly Gly Ser Gly Gln Gly
Gly 20 25 30 Gln Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly
Ser Asp Ile 35 40 45 Gln Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala
Ser Val Gly Asp Arg 50 55 60 Val Thr Ile Thr Cys Ser Ala Ser Gln
Asp Ile Ser Asn Tyr Leu Asn 65 70 75 80 Trp Tyr Gln Gln Lys Pro Gly
Lys Ala Pro Lys Val Leu Ile Tyr Phe 85 90 95 Thr Ser Ser Leu His
Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly 100 105 110 Ser Gly Thr
Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp 115 120 125 Phe
Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe 130 135
140 Gly Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly
145 150 155
160 Gly Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu Ser
165 170 175 Gly Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu Ser
Cys Ala 180 185 190 Ala Ser Gly Tyr Asp Phe Thr His Tyr Gly Met Asn
Trp Val Arg Gln 195 200 205 Ala Pro Gly Lys Gly Leu Glu Trp Val Gly
Trp Ile Asn Thr Tyr Thr 210 215 220 Gly Glu Pro Thr Tyr Ala Ala Asp
Phe Lys Arg Arg Phe Thr Phe Ser 225 230 235 240 Leu Asp Thr Ser Lys
Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg 245 250 255 Ala Glu Asp
Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr 260 265 270 Gly
Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val 275 280
285 Thr Val Ser Gly Gly Ser Gly Ala Met Val Arg Ser Asp Lys Thr His
290 295 300 Thr Cys Pro Pro Cys Pro Ala Pro Glu Leu Leu Gly Gly Pro
Ser Val 305 310 315 320 Phe Leu Phe Pro Pro Lys Pro Lys Asp Thr Leu
Met Ile Ser Arg Thr 325 330 335 Pro Glu Val Thr Cys Val Val Val Asp
Val Ser His Glu Asp Pro Glu 340 345 350 Val Lys Phe Asn Trp Tyr Val
Asp Gly Val Glu Val His Asn Ala Lys 355 360 365 Thr Lys Pro Arg Glu
Glu Gln Tyr Asn Ser Thr Tyr Arg Val Val Ser 370 375 380 Val Leu Thr
Val Leu His Gln Asp Trp Leu Asn Gly Lys Glu Tyr Lys 385 390 395 400
Cys Lys Val Ser Asn Lys Ala Leu Pro Ala Pro Ile Glu Lys Thr Ile 405
410 415 Ser Lys Ala Lys Gly Gln Pro Arg Glu Pro Gln Val Tyr Thr Leu
Pro 420 425 430 Pro Ser Arg Glu Glu Met Thr Lys Asn Gln Val Ser Leu
Thr Cys Leu 435 440 445 Val Lys Gly Phe Tyr Pro Ser Asp Ile Ala Val
Glu Trp Glu Ser Asn 450 455 460 Gly Gln Pro Glu Asn Asn Tyr Lys Thr
Thr Pro Pro Val Leu Asp Ser 465 470 475 480 Asp Gly Ser Phe Phe Leu
Tyr Ser Lys Leu Thr Val Asp Lys Ser Arg 485 490 495 Trp Gln Gln Gly
Asn Val Phe Ser Cys Ser Val Met His Glu Gly Leu 500 505 510 His Asn
His Tyr Thr Gln Lys Ser Leu Ser Leu Ser Pro Gly Lys 515 520 525
8357DNAArtificial SequenceSynthetic oligonucleotide 83atg att ttg
ttg tgc gcg gcg ggt cgg acg tgg gtg gag gct tgc gct 48Met Ile Leu
Leu Cys Ala Ala Gly Arg Thr Trp Val Glu Ala Cys Ala 1 5 10 15aat
ggt agg 57Asn Gly Arg 8419PRTArtificial SequenceSynthetic peptide
84Met Ile Leu Leu Cys Ala Ala Gly Arg Thr Trp Val Glu Ala Cys Ala 1
5 10 15 Asn Gly Arg 8542DNAArtificial SequenceSynthetic
oligonucleotide 85gct gag cgg ttg tgc gcg tgg gcg ggg cgg ttc tgt
ggc agc 42Ala Glu Arg Leu Cys Ala Trp Ala Gly Arg Phe Cys Gly Ser1
5 108614PRTArtificial SequenceSynthetic peptide 86Ala Glu Arg Leu
Cys Ala Trp Ala Gly Arg Phe Cys Gly Ser 1 5 10 8745DNAArtificial
SequenceSynthetic oligonucleotide 87tgg gcg gat gtt atg cct ggg tcg
ggt gtg ttg ccg tgg acg tcg 45Trp Ala Asp Val Met Pro Gly Ser Gly
Val Leu Pro Trp Thr Ser 1 5 10 15 8815PRTArtificial
SequenceSynthetic peptide 88Trp Ala Asp Val Met Pro Gly Ser Gly Val
Leu Pro Trp Thr Ser 1 5 10 15 8960DNAArtificial SequenceSynthetic
oligonucleotide 89agt gat ggt cgt atg ggg agt ttg gag ctt tgt gcg
ttg tgg ggg cgg 48Ser Asp Gly Arg Met Gly Ser Leu Glu Leu Cys Ala
Leu Trp Gly Arg 1 5 10 15 ttc tgt ggc agc 60Phe Cys Gly Ser 20
9020PRTArtificial SequenceSynthetic peptide 90Ser Asp Gly Arg Met
Gly Ser Leu Glu Leu Cys Ala Leu Trp Gly Arg 1 5 10 15 Phe Cys Gly
Ser 20 9145DNAArtificial SequenceSynthetic oligonucleotide 91ccg
tgt tct gag tgg cag tcg atg gtg cag ccg cgt tgc tat tat 45Pro Cys
Ser Glu Trp Gln Ser Met Val Gln Pro Arg Cys Tyr Tyr1 5 10 15
9215PRTArtificial SequenceSynthetic peptide 92Pro Cys Ser Glu Trp
Gln Ser Met Val Gln Pro Arg Cys Tyr Tyr 1 5 10 15 9320DNAArtificial
SequenceSynthetic primer 93gtyttrtgng tnacytcrca
209423DNAArtificial SequenceSynthetic primer 94acdatyttyt
trtcnacytt ngt 239555DNAArtificial SequenceSynthetic primer
95cgtcgatgag ctctagaatt cgcatgtgca agtccgatgg tccccccccc ccccc
559647DNAArtificial SequenceSynthetic oligonucleotide 96cgtcatgtcg
acggatccaa gcttacyttc cayttnacrt tdatrtc 479748DNAArtificial
SequenceSynthetic oligonucleotide 97cgtcatgtcg acggatccaa
gcttrcangc nggngcnarn ggrtanac 4898131PRTArtificial
SequenceSynthetic polypeptide 98Met Glu Ser His Ile His Val Phe Met
Ser Leu Phe Leu Trp Val Ser 1 5 10 15 Gly Ser Cys Ala Asp Ile Met
Met Thr Gln Ser Pro Ser Ser Leu Ser 20 25 30 Val Ser Ala Gly Glu
Lys Ala Thr Ile Ser Cys Lys Ser Ser Gln Ser 35 40 45 Leu Phe Asn
Ser Asn Ala Lys Thr Asn Tyr Leu Asn Trp Tyr Leu Gln 50 55 60 Lys
Pro Gly Gln Ser Pro Lys Leu Leu Ile Tyr Tyr Ala Ser Thr Arg 65 70
75 80 His Thr Gly Val Pro Asp Arg Phe Arg Gly Ser Gly Thr Asp Phe
Thr 85 90 95 Leu Thr Ile Ser Ser Val Gln Asp Glu Asp Leu Ala Phe
Tyr Tyr Cys 100 105 110 Gln Gln Trp Tyr Asp Tyr Pro Tyr Thr Phe Gly
Ala Gly Thr Lys Val 115 120 125 Glu Ile Lys 130 99399DNAArtificial
SequenceSynthetic polynucleotide 99atggaatcac atatccatgt cttcatgtcc
ttgttccttt gggtgtctgg ttcctgtgca 60gacatcatga tgacccagtc tccttcatcc
ctgagtgtgt cagcgggaga gaaagccact 120atcagctgca agtccagtca
gagtcttttc aacagtaacg ccaaaacgaa ctacttgaac 180tggtatttgc
agaaaccagg gcagtctcct aaactgctga tctattatgc atccactagg
240catactgggg tccctgatcg cttcagaggc agtggatctg ggacggattt
cactctcacc 300atcagcagtg tccaggatga agacctggca ttttattact
gtcagcagtg gtatgactac 360ccatacacgt tcggagctgg gaccaaggtg gaaatcaaa
399100135PRTArtificial SequenceSynthetic polypeptide 100Lys Met Arg
Leu Leu Gly Leu Leu Tyr Leu Val Thr Ala Leu Pro Gly 1 5 10 15 Val
Leu Ser Gln Ile Gln Leu Gln Glu Ser Gly Pro Gly Leu Val Asn 20 25
30 Pro Ser Gln Ser Leu Ser Leu Ser Cys Ser Val Thr Gly Tyr Ser Ile
35 40 45 Thr Ser Gly Tyr Gly Trp Asn Trp Ile Arg Gln Phe Pro Gly
Gln Lys 50 55 60 Val Glu Trp Met Gly Phe Ile Tyr Tyr Glu Gly Ser
Thr Tyr Tyr Asn 65 70 75 80 Pro Ser Ile Lys Ser Arg Ile Ser Ile Thr
Arg Asp Thr Ser Lys Asn 85 90 95 Gln Phe Phe Leu Gln Val Asn Ser
Val Thr Thr Glu Asp Thr Ala Thr 100 105 110 Tyr Tyr Cys Ala Arg Gln
Thr Gly Tyr Phe Asp Tyr Trp Gly Gln Gly 115 120 125 Thr Met Val Thr
Val Ser Ser 130 135 101405DNAArtificial SequenceSynthetic
polynucleotide 101aagatgagac tgttgggtct tctgtacctg gtgacagccc
ttcctggtgt cctgtcccag 60atccagcttc aggagtcagg acctggcctg gtgaacccct
cacaatcact gtccctctct 120tgctctgtca ctggttactc catcaccagt
ggttatggat ggaactggat caggcagttc 180ccagggcaga aggtggagtg
gatgggattc atatattatg agggtagcac ctactacaac 240ccttccatca
agagccgcat ctccatcacc agagacacat cgaagaacca gttcttcctg
300caggtgaatt ctgtgaccac tgaggacaca gccacatatt actgtgcgag
acaaactggg 360tactttgatt actggggcca aggaaccatg gtcaccgtct cctca
40510212PRTArtificial SequenceSynthetic peptide 102Gly Gly Gly Ser
Gly Gly Gly Ser Gly Gly Gly Ser 1 5 10 10339DNAArtificial
SequenceSynthetic primer 103caaggaccat agcatatgga catcatgatg
acccagtct 3910450DNAArtificial SequenceSynthetic primer
104acttccgcct ccacctgatc caccaccacc tttgatttcc accttggtcc
5010560DNAArtificial SequenceSynthetic primer 105ggatcaggtg
gaggcggaag tggaggtggc ggttcccaga tccagcttca ggagtcagga
6010661DNAArtificial SequenceSynthetic primer 106ggccggatcc
aagcttttag tggtgatggt gatgatgtga ggagacggtg accatggttc 60c
6110740DNAArtificial SequenceSynthetic primer 107acaaggacca
tagcatatgc agatccagct tcaggagtca 4010854DNAArtificial
SequenceSynthetic primer 108acttccgcct ccacctgatc caccaccacc
tgaggagacg gtgaccatgg ttcc 5410963DNAArtificial SequenceSynthetic
primer 109ggtggatcag gtggaggcgg aagtggaggt ggcggttccg acatcatgat
gacccagtct 60cct 6311062DNAArtificial SequenceSynthetic primer
110cggccggatc caagctttta gtggtgatgg tgatgatgtt tgatttccac
cttggtccca 60gc 621116PRTArtificial SequenceSynthetic peptide
111Gly Gly Ser Gly Gly Ser 1 5 11260DNAArtificial SequenceSynthetic
primer 112gccagtctgg ccggtagggc tcgagcggcc aagtgcacat gccactgggc
ttcctgggtc 6011360DNAArtificial SequenceSynthetic primer
113gccactgggc ttcctgggtc cgggtggaag cggcggctca gacatcatga
tgacccagtc 6011461DNAArtificial SequenceSynthetic primer
114gccactgggc ttcctgggtc cgggtggaag cggcggctca cagatccagc
ttcaggagtc 60a 6111547DNAArtificial SequenceSynthetic primer
115ttcaccaaca aggaccatag catatgggcc agtctggccg gtagggc
4711661DNAArtificial SequenceSynthetic primer 116ggccggatcc
aagcttttag tggtgatggt gatgatgtga ggagacggtg accatggttc 60c
6111754DNAArtificial SequenceSynthetic primer 117acttccgcct
ccacctgatc caccaccacc tgaggagacg gtgaccatgg ttcc
5411828PRTArtificial SequenceSynthetic peptide 118Gly Gly Ser Gly
Gly Ser Gly Gly Ser Ser Gly Gln Val His Met Pro 1 5 10 15 Leu Gly
Phe Leu Gly Pro Gly Gly Ser Gly Gly Ser 20 25 11984DNAArtificial
SequenceSynthetic oligonucleotide 119ggcggttctg gtggcagcgg
tggctcgagc ggccaagtgc acatgccact gggcttcctg 60ggtccgggtg gaagcggcgg
ctca 84120291PRTArtificial SequenceSynthetic polypeptide 120Met Ile
Leu Leu Cys Ala Ala Gly Arg Thr Trp Val Glu Ala Cys Ala 1 5 10 15
Asn Gly Arg Gly Gly Ser Gly Gly Ser Gly Gly Ser Ser Gly Gln Val 20
25 30 His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Gly Gly Ser
Gln 35 40 45 Ile Gln Leu Gln Glu Ser Gly Pro Gly Leu Val Asn Pro
Ser Gln Ser 50 55 60 Leu Ser Leu Ser Cys Ser Val Thr Gly Tyr Ser
Ile Thr Ser Gly Tyr 65 70 75 80 Gly Trp Asn Trp Ile Arg Gln Phe Pro
Gly Gln Lys Val Glu Trp Met 85 90 95 Gly Phe Ile Tyr Tyr Glu Gly
Ser Thr Tyr Tyr Asn Pro Ser Ile Lys 100 105 110 Ser Arg Ile Ser Ile
Thr Arg Asp Thr Ser Lys Asn Gln Phe Phe Leu 115 120 125 Gln Val Asn
Ser Val Thr Thr Glu Asp Thr Ala Thr Tyr Tyr Cys Ala 130 135 140 Arg
Gln Thr Gly Tyr Phe Asp Tyr Trp Gly Gln Gly Thr Met Val Thr 145 150
155 160 Val Ser Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly
Gly 165 170 175 Gly Ser Asp Ile Met Met Thr Gln Ser Pro Ser Ser Leu
Ser Val Ser 180 185 190 Ala Gly Glu Lys Ala Thr Ile Ser Cys Lys Ser
Ser Gln Ser Leu Phe 195 200 205 Asn Ser Asn Ala Lys Thr Asn Tyr Leu
Asn Trp Tyr Leu Gln Lys Pro 210 215 220 Gly Gln Ser Pro Lys Leu Leu
Ile Tyr Tyr Ala Ser Thr Arg His Thr 225 230 235 240 Gly Val Pro Asp
Arg Phe Arg Gly Ser Gly Ser Gly Thr Asp Phe Thr 245 250 255 Leu Thr
Ile Ser Ser Val Gln Asp Glu Asp Leu Ala Phe Tyr Tyr Cys 260 265 270
Gln Gln Trp Tyr Asp Tyr Pro Tyr Thr Phe Gly Ala Gly Thr Lys Val 275
280 285 Glu Ile Lys 290 121894DNAArtificial SequenceSynthetic
polynucleotide 121atgattttgt tgtgcgcggc gggtcggacg tgggtggagg
cttgcgctaa tggtaggggc 60ggttctggtg gcagcggtgg ctcgagcggc caagtgcaca
tgccactggg cttcctgggt 120ccgggtggaa gcggcggctc acagatccag
cttcaggagt caggacctgg cctggtgaac 180ccctcacaat cactgtccct
ctcttgctct gtcactggtt actccatcac cagtggttat 240ggatggaact
ggatcaggca gttcccaggg cagaaggtgg agtggatggg attcatatat
300tatgagggta gcacctacta caacccttcc atcaagagcc gcatctccat
caccagagac 360acatcgaaga accagttctt cctgcaggtg aattctgtga
ccactgagga cacagccaca 420tattactgtg cgagacaaac tgggtacttt
gattactggg gccaaggaac catggtcacc 480gtctcctcag gtggtggtgg
atcaggtgga ggcggaagtg gaggtggcgg ttccgacatc 540atgatgaccc
agtctccttc atccctgagt gtgtcagcgg gagagaaagc cactatcagc
600tgcaagtcca gtcagagtct tttcaacagt aacgccaaaa cgaactactt
gaactggtat 660ttgcagaaac cagggcagtc tcctaaactg ctgatctatt
atgcatccac taggcatact 720ggggtccctg atcgcttcag aggcagtgga
tctgggacgg atttcactct caccatcagc 780agtgtccagg atgaagacct
ggcattttat tactgtcagc agtggtatga ctacccatac 840acgttcggag
ctgggaccaa ggtggaaatc aaacatcatc accatcacca ctaa
89412237DNAArtificial SequenceSynthetic primer 122tcagatctaa
ccatggcttt gatttccacc ttggtcc 3712337DNAArtificial
SequenceSynthetic primer 123tcagatctaa ccatggctga ggagacggtg
accatgg 3712437DNAArtificial SequenceSynthetic primer 124cacttgtcac
gaattcgatg attttgttgt gcgcggc 3712536DNAArtificial
SequenceSynthetic primer 125cacttgtcac gaattcgtgg gcggatgtta tgcctg
3612637DNAArtificial SequenceSynthetic primer 126cacttgtcac
gaattcggct gagcggttgt gcgcgtg 3712737DNAArtificial
SequenceSynthetic primer 127cacttgtcac gaattcgagt gatggtcgta
tggggag 3712838DNAArtificial SequenceSynthetic primer 128cacttgtcac
gaattcgccg tgttctgagt ggcagtcg 38129750DNAArtificial
SequenceSynthetic polynucleotide 129gaaattgtgt tgacacagtc
tccaggcacc ctgtctttgt ctccagggga aagagccacc 60ctctcctgca gggccagtca
gagtgttagc agcagctact tagcctggta ccagcagaaa 120cctggccagg
ctcccaggct cctcatctat ggtgcatcca gcagggccac tggcatccca
180gacaggttca gtggcagtgg gtctgggaca gacttcactc tcaccatcag
cagactggag 240cctgaagatt ttgcagtgta ttactgtcag cagtatggta
gctcaccgct cactttcggc 300ggagggacca aggtggaaat caaacgttcc
ggagggtcga ccataacttc gtataatgta 360tactatacga agttatcctc
gagcggtacc caggtgcagc tggtgcagac tgggggaggc 420gtggtccagc
ctgggaggtc cctgagactc tcctgtgcag cctctggatc cacctttagc
480agctatgcca tgagctgggt ccgccaggct ccagggaagg ggctggagtg
ggtctcagct 540attagtggta gtggtggtag cacatactac gcagactccg
tgaagggccg gttcaccatc 600tccagagaca attccaagaa cacgctgtat
ctgcaaatga acagcctgag agccgaggac 660acggccgtat attactgtgc
gacaaactcc ctttactggt acttcgatct ctggggccgt 720ggcaccctgg
tcactgtctc ttcagctagc 750130251PRTArtificial SequenceSynthetic
polypeptide 130Glu Ile Val Leu Thr Gln Ser Pro Gly Thr Leu Ser Leu
Ser Pro Gly 1 5 10 15 Glu Arg Ala Thr Leu Ser Cys Arg Ala Ser Gln
Ser Val Ser Ser Ser 20 25 30 Tyr Leu Ala Trp Tyr Gln Gln Lys Pro
Gly Gln Ala Pro Arg Leu Leu 35 40 45 Ile Tyr Gly Ala Ser Ser Arg
Ala Thr Gly Ile Pro Asp Arg Phe Ser 50 55 60 Gly Ser Gly Ser Gly
Thr Asp Phe Thr Leu Thr Ile Ser Arg Leu Glu 65 70 75 80 Pro Glu Asp
Phe Ala Val Tyr Tyr Cys Gln Gln Tyr Gly Ser Ser Pro 85 90 95 Leu
Thr Phe Gly Gly Gly Gly Thr Lys Val
Glu Ile Lys Arg Ser Gly 100 105 110 Gly Ser Thr Ile Thr Ser Tyr Asn
Val Tyr Tyr Thr Lys Leu Ser Ser 115 120 125 Ser Gly Thr Gln Val Gln
Leu Val Gln Thr Gly Gly Gly Val Val Gln 130 135 140 Pro Gly Arg Ser
Leu Arg Leu Ser Cys Ala Ala Ser Gly Ser Thr Phe 145 150 155 160 Ser
Ser Tyr Ala Met Ser Trp Val Arg Gln Ala Pro Gly Lys Gly Leu 165 170
175 Glu Trp Val Ser Ala Ile Ala Gly Ser Gly Gly Ser Thr Tyr Tyr Ala
180 185 190 Asp Ser Val Lys Gly Arg Phe Thr Ile Ser Arg Asp Asn Ser
Lys Asn 195 200 205 Thr Leu Tyr Leu Gln Met Asn Ser Leu Arg Ala Glu
Asp Thr Ala Val 210 215 220 Tyr Tyr Cys Ala Thr Asn Ser Leu Tyr Trp
Tyr Phe Asp Leu Trp Gly 225 230 235 240 Arg Gly Thr Leu Val Thr Val
Ser Ser Ala Ser 245 250 13136DNAArtificial SequenceSynthetic primer
131cttgtcacga attcggatat tcaactgacc cagagc 3613235DNAArtificial
SequenceSynthetic primer 132gtgcagccac cgtacgctta atctccactt tggtg
3513320DNAArtificial SequenceSynthetic primer 133tgcttgctca
actctacgtc 2013440DNAArtificial SequenceSynthetic primer
134gctttcaccg caggtacttc cgtagctggc cagtctggcc 4013540DNAArtificial
SequenceSynthetic primer 135cgctccatgg gccaccttgg ccgctgccac
cgctcgagcc 4013637DNAArtificial SequenceSynthetic primer
136cacttgtcac gaattcggag gtccagctgg tagaaag 3713739DNAArtificial
SequenceSynthetic primer 137ggcccttggt gctagcgctc gacactgtaa
ccagagtac 39138645DNAArtificial SequenceSynthetic polynucleotide
138gatattcaac tgacccagag cccttcttcc ctgagtgcca gcgtgggtga
ccgtgttacg 60atcacttgct cggccagcca agatatttct aactacctga attggtacca
gcagaagcca 120ggaaaggcac caaaagtcct gatctacttc acaagttcac
tgcattccgg cgtaccgtcg 180cgctttagcg gttctggcag tggtaccgac
ttcaccctga ctatctcgag tctgcaacct 240gaggattttg ctacatatta
ctgtcagcaa tattcgaccg tgccgtggac gttcgggcag 300ggcaccaaag
tggagattaa gcgtacggtg gctgcaccat ctgtcttcat cttcccgcca
360tctgatgagc agttgaaatc tggaactgcc tctgttgtgt gcctgctgaa
taacttctat 420cccagagagg ccaaagtaca gtggaaggtg gataacgccc
tccaatcggg taactcccag 480gagagtgtca cagagcagga cagcaaggac
agcacctaca gcctcagcag caccctgacg 540ctgagcaaag cagactacga
gaaacacaaa gtctacgcct gcgaagtcac ccatcagggc 600ctgagctcgc
ccgtcacaaa gagcttcaac aggggagagt gttag 645139214PRTArtificial
SequenceSynthetic polypeptide 139Asp Ile Gln Leu Thr Gln Ser Pro
Ser Ser Leu Ser Ala Ser Val Gly 1 5 10 15 Asp Arg Val Thr Ile Thr
Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr 20 25 30 Leu Asn Trp Tyr
Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile 35 40 45 Tyr Phe
Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly 50 55 60
Ser Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro 65
70 75 80 Glu Asp Phe Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val
Pro Trp 85 90 95 Thr Phe Gly Gln Gly Thr Lys Val Glu Ile Lys Arg
Thr Val Ala Ala 100 105 110 Pro Ser Val Phe Ile Phe Pro Pro Ser Asp
Glu Gln Leu Lys Ser Gly 115 120 125 Thr Ala Ser Val Val Cys Leu Leu
Asn Asn Phe Tyr Pro Arg Glu Ala 130 135 140 Lys Val Gln Trp Lys Val
Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln 145 150 155 160 Glu Ser Val
Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser 165 170 175 Ser
Thr Leu Thr Leu Ser Lys Ala Asp Tyr Glu Lys His Lys Val Tyr 180 185
190 Ala Cys Glu Val Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser
195 200 205 Phe Asn Arg Gly Glu Cys 210 14016PRTArtificial
SequenceSynthetic peptide 140Pro Cys Ser Glu Trp Gln Ser Met Val
Gln Pro Arg Cys Tyr Tyr Gly 1 5 10 15 14116PRTArtificial
SequenceSynthetic peptide 141Pro Cys Ser Glu Trp Gln Ser Met Val
Gln Pro Arg Cys Tyr Tyr Gly 1 5 10 15 14216PRTArtificial
SequenceSynthetic peptide 142Ser Cys Thr Ala Trp Gln Ser Met Val
Glu Gln Arg Cys Tyr Phe Gly 1 5 10 15 14316PRTArtificial
SequenceSynthetic peptide 143Pro Cys Ser Lys Trp Glu Ser Met Val
Glu Gln Arg Cys Tyr Phe Ala 1 5 10 15 14416PRTArtificial
SequenceSynthetic peptide 144Pro Cys Ser Ala Trp Gln Ser Met Val
Glu Gln Arg Cys Tyr Phe Gly 1 5 10 15 14516PRTArtificial
SequenceSynthetic peptide 145Pro Cys Ser Lys Trp Glu Ser Met Val
Leu Gln Ser Cys Tyr Phe Gly 1 5 10 15 14616PRTArtificial
SequenceSynthetic peptide 146Thr Cys Ser Ala Trp Gln Ser Met Val
Glu Gln Arg Cys Tyr Phe Gly 1 5 10 15 14716PRTArtificial
SequenceSynthetic peptide 147Thr Cys Ser Gln Trp Glu Ser Met Val
Glu Pro Arg Cys Tyr Phe Gly 1 5 10 15 148780DNAArtificial
SequenceSynthetic polynucleotide 148ggccagtctg gccagccgtg
ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag
cggccaaggt ggccaagtgc acatgccact gggcttcctg 120ggtccgggcg
gttctgatat tcaactgacc cagagccctt cttccctgag tgccagcgtg
180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata tttctaacta
cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa gtcctgatct
acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt tagcggttct
ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc aacctgagga
ttttgctaca tattactgtc agcaatattc gaccgtgccg 420tggacgttcg
ggcagggcac caaagtggag attaagcgta cggtggctgc accatctgtc
480ttcatcttcc cgccatctga tgagcagttg aaatctggaa ctgcctctgt
tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa gtacagtgga
aggtggataa cgccctccaa 600tcgggtaact cccaggagag tgtcacagag
caggacagca aggacagcac ctacagcctc 660agcagcaccc tgacgctgag
caaagcagac tacgagaaac acaaagtcta cgcctgcgaa 720gtcacccatc
agggcctgag ctcgcccgtc acaaagagct tcaacagggg agagtgttag
780149259PRTArtificial SequenceSynthetic polypeptide 149Gly Gln Ser
Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg
Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25
30 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp Ile Gln
35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp
Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn
Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys
Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro
Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu
Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr
Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly
Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro Ser Val 145 150 155
160 Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser
165 170 175 Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys
Val Gln 180 185 190 Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser
Gln Glu Ser Val 195 200 205 Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr
Ser Leu Ser Ser Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu
Lys His Lys Val Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly
Leu Ser Ser Pro Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
150780DNAArtificial SequenceSynthetic polynucleotide 150ggccagtctg
gccagtcgtg tacggcgtgg cagtcgatgg tggagcagcg ttgctatttt 60gggggctcga
gcggtggcag cggccaaggt ggccaagtgc acatgccact gggcttcctg
120ggtccgggcg gttctgatat tcaactgacc cagagccctt cttccctgag
tgccagcgtg 180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata
tttctaacta cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa
gtcctgatct acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt
tagcggttct ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc
aacctgagga ttttgctaca tattactgtc agcaatattc gaccgtgccg
420tggacgttcg ggcagggcac caaagtggag attaagcgta cggtggctgc
accatctgtc 480ttcatcttcc cgccatctga tgagcagttg aaatctggaa
ctgcctctgt tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa
gtacagtgga aggtggataa cgccctccaa 600tcgggtaact cccaggagag
tgtcacagag caggacagca aggacagcac ctacagcctc 660agcagcaccc
tgacgctgag caaagcagac tacgagaaac acaaagtcta cgcctgcgaa
720gtcacccatc agggcctgag ctcgcccgtc acaaagagct tcaacagggg
agagtgttag 780151259PRTArtificial SequenceSynthetic polypeptide
151Gly Gln Ser Gly Gln Ser Cys Thr Ala Trp Gln Ser Met Val Glu Gln
1 5 10 15 Arg Cys Tyr Phe Gly Gly Ser Ser Gly Gly Ser Gly Gln Gly
Gly Gln 20 25 30 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly
Ser Asp Ile Gln 35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala
Ser Val Gly Asp Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln
Asp Ile Ser Asn Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly
Lys Ala Pro Lys Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His
Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr
Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125
Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130
135 140 Gln Gly Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro Ser
Val 145 150 155 160 Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser
Gly Thr Ala Ser 165 170 175 Val Val Cys Leu Leu Asn Asn Phe Tyr Pro
Arg Glu Ala Lys Val Gln 180 185 190 Trp Lys Val Asp Asn Ala Leu Gln
Ser Gly Asn Ser Gln Glu Ser Val 195 200 205 Thr Glu Gln Asp Ser Lys
Asp Ser Thr Tyr Ser Leu Ser Ser Thr Leu 210 215 220 Thr Leu Ser Lys
Ala Asp Tyr Glu Lys His Lys Val Tyr Ala Cys Glu 225 230 235 240 Val
Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser Phe Asn Arg 245 250
255 Gly Glu Cys 152780DNAArtificial SequenceSynthetic
polynucleotide 152ggccagtctg gccagccgtg ttctgcgtgg cagtctatgg
tggagcagcg ttgctatttt 60gggggctcga gcggtggcag cggccaaggt ggccaagtgc
acatgccact gggcttcctg 120ggtccgggcg gttctgatat tcaactgacc
cagagccctt cttccctgag tgccagcgtg 180ggtgaccgtg ttacgatcac
ttgctcggcc agccaagata tttctaacta cctgaattgg 240taccagcaga
agccaggaaa ggcaccaaaa gtcctgatct acttcacaag ttcactgcat
300tccggcgtac cgtcgcgctt tagcggttct ggcagtggta ccgacttcac
cctgactatc 360tcgagtctgc aacctgagga ttttgctaca tattactgtc
agcaatattc gaccgtgccg 420tggacgttcg ggcagggcac caaagtggag
attaagcgta cggtggctgc accatctgtc 480ttcatcttcc cgccatctga
tgagcagttg aaatctggaa ctgcctctgt tgtgtgcctg 540ctgaataact
tctatcccag agaggccaaa gtacagtgga aggtggataa cgccctccaa
600tcgggtaact cccaggagag tgtcacagag caggacagca aggacagcac
ctacagcctc 660agcagcaccc tgacgctgag caaagcagac tacgagaaac
acaaagtcta cgcctgcgaa 720gtcacccatc agggcctgag ctcgcccgtc
acaaagagct tcaacagggg agagtgttag 780153259PRTArtificial
SequenceSynthetic polypeptide 153Gly Gln Ser Gly Gln Pro Cys Ser
Ala Trp Gln Ser Met Val Glu Gln 1 5 10 15 Arg Cys Tyr Phe Gly Gly
Ser Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25 30 Val His Met Pro
Leu Gly Phe Leu Gly Pro Gly Gly Ser Asp Ile Gln 35 40 45 Leu Thr
Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp Arg Val 50 55 60
Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn Trp 65
70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr
Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser
Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser
Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr Cys Gln Gln Tyr
Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly Thr Lys Val Glu
Ile Lys Arg Thr Val Ala Ala Pro Ser Val 145 150 155 160 Phe Ile Phe
Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser 165 170 175 Val
Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val Gln 180 185
190 Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu Ser Val
195 200 205 Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser Ser
Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu Lys His Lys Val
Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly Leu Ser Ser Pro
Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
154780DNAArtificial SequenceSynthetic polynucleotide 154ggccagtctg
gccagccgtg ttctaagtgg gaatcgatgg tgctgcagag ttgctatttt 60ggcggctcga
gcggtggcag cggccaaggt ggccaagtgc acatgccact gggcttcctg
120ggtccgggcg gttctgatat tcaactgacc cagagccctt cttccctgag
tgccagcgtg 180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata
tttctaacta cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa
gtcctgatct acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt
tagcggttct ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc
aacctgagga ttttgctaca tattactgtc agcaatattc gaccgtgccg
420tggacgttcg ggcagggcac caaagtggag attaagcgta cggtggctgc
accatctgtc 480ttcatcttcc cgccatctga tgagcagttg aaatctggaa
ctgcctctgt tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa
gtacagtgga aggtggataa cgccctccaa 600tcgggtaact cccaggagag
tgtcacagag caggacagca aggacagcac ctacagcctc 660agcagcaccc
tgacgctgag caaagcagac tacgagaaac acaaagtcta cgcctgcgaa
720gtcacccatc agggcctgag ctcgcccgtc acaaagagct tcaacagggg
agagtgttag 780155259PRTArtificial SequenceSynthetic polypeptide
155Gly Gln Ser Gly Gln Pro Cys Ser Lys Trp Glu Ser Met Val Leu Gln
1 5 10 15 Ser Cys Tyr Phe Gly Gly Ser Ser Gly Gly Ser Gly Gln Gly
Gly Gln 20 25 30 Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly
Ser Asp Ile Gln 35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala
Ser Val Gly Asp Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln
Asp Ile Ser Asn Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly
Lys Ala Pro Lys Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His
Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr
Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125
Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130
135 140 Gln Gly Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro Ser
Val 145 150 155 160 Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser
Gly Thr Ala Ser 165 170 175 Val Val Cys Leu Leu Asn Asn Phe Tyr Pro
Arg Glu Ala Lys Val Gln 180 185 190 Trp Lys Val Asp Asn Ala Leu Gln
Ser Gly Asn Ser Gln Glu Ser Val 195 200 205 Thr Glu Gln Asp Ser Lys
Asp Ser Thr Tyr Ser Leu
Ser Ser Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu Lys His
Lys Val Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly Leu Ser
Ser Pro Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
15635DNAArtificial SequenceSynthetic primer 156ccgcaggtac
ctcgagcgct agccagtctg gccag 3515720DNAArtificial SequenceSynthetic
primer 157tgcttgctca actctacgtc 2015819DNAArtificial
SequenceSynthetic primer 158aacttgttta ttgcagctt
1915946DNAArtificial SequenceSynthetic primer 159gagttttgtc
ggatccacca gagccaccgc tgccaccgct cgagcc 4616040DNAArtificial
SequenceSynthetic primer 160gcgtatgcag gatccggcgg cgatattctg
ctgacccaga 4016140DNAArtificial SequenceSynthetic primer
161cacgctcaga atcaccgggc tctgggtcag cagaatatcg 4016240DNAArtificial
SequenceSynthetic primer 162gcccggtgat tctgagcgtg agcccgggcg
aacgtgtgag 4016340DNAArtificial SequenceSynthetic primer
163ggctcgcgcg gcagctaaag ctcacacgtt cgcccgggct 4016440DNAArtificial
SequenceSynthetic primer 164ctttagctgc cgcgcgagcc agagcattgg
caccaacatt 4016540DNAArtificial SequenceSynthetic primer
165gtgcgctgct gataccaatg aatgttggtg ccaatgctct 4016640DNAArtificial
SequenceSynthetic primer 166cattggtatc agcagcgcac caacggcagc
ccgcgcctgc 4016740DNAArtificial SequenceSynthetic primer
167ttcgctcgca tatttaatca gcaggcgcgg gctgccgttg 4016840DNAArtificial
SequenceSynthetic primer 168tgattaaata tgcgagcgaa agcattagcg
gcattccgag 4016940DNAArtificial SequenceSynthetic primer
169tgccgctgcc gctaaagcgg ctcggaatgc cgctaatgct 4017040DNAArtificial
SequenceSynthetic primer 170ccgctttagc ggcagcggca gcggcaccga
ttttaccctg 4017140DNAArtificial SequenceSynthetic primer
171ctttccacgc tgttaatgct cagggtaaaa tcggtgccgc 4017240DNAArtificial
SequenceSynthetic primer 172agcattaaca gcgtggaaag cgaagatatt
gcggattatt 4017340DNAArtificial SequenceSynthetic primer
173gttgttgttc tgctggcaat aataatccgc aatatcttcg 4017440DNAArtificial
SequenceSynthetic primer 174attgccagca gaacaacaac tggccgacca
cctttggcgc 4017540DNAArtificial SequenceSynthetic primer
175tcagttccag tttggtgccc gcgccaaagg tggtcggcca 4017640DNAArtificial
SequenceSynthetic primer 176gggcaccaaa ctggaactga aacgcggccg
ccatcaccat 4017740DNAArtificial SequenceSynthetic primer
177ctcccacgcg tatggtgatg atggtgatgg cggccgcgtt 4017840DNAArtificial
SequenceSynthetic primer 178cgtatgcaag atctggtagc ggtacccagg
tgcagctgaa 4017940DNAArtificial SequenceSynthetic primer
179ccaggcccgg gccgctctgt ttcagctgca cctgggtacc 4018040DNAArtificial
SequenceSynthetic primer 180acagagcggc ccgggcctgg tgcagccgag
ccagagcctg 4018140DNAArtificial SequenceSynthetic primer
181ctcacggtgc aggtaatgct caggctctgg ctcggctgca 4018240DNAArtificial
SequenceSynthetic primer 182agcattacct gcaccgtgag cggctttagc
ctgaccaact 4018340DNAArtificial SequenceSynthetic primer
183gcgcacccaa tgcacgccat agttggtcag gctaaagccg 4018440DNAArtificial
SequenceSynthetic primer 184atggcgtgca ttgggtgcgc cagagcccgg
gcaaaggcct 4018540DNAArtificial SequenceSynthetic primer
185aaatcacgcc cagccattcc aggcctttgc ccgggctctg 4018640DNAArtificial
SequenceSynthetic primer 186ggaatggctg ggcgtgattt ggagcggcgg
caacaccgat 4018740DNAArtificial SequenceSynthetic primer
187ctggtaaacg gggtgttata atcggtgttg ccgccgctcc 4018840DNAArtificial
SequenceSynthetic primer 188tataacaccc cgtttaccag ccgcctgagc
attaacaaag 4018940DNAArtificial SequenceSynthetic primer
189cacctggctt ttgctgttat ctttgttaat gctcaggcgg 4019040DNAArtificial
SequenceSynthetic primer 190ataacagcaa aagccaggtg ttttttaaaa
tgaacagcct 4019140DNAArtificial SequenceSynthetic primer
191tcgcggtatc gttgctttgc aggctgttca ttttaaaaaa 4019240DNAArtificial
SequenceSynthetic primer 192gcaaagcaac gataccgcga tttattattg
cgcgcgcgcg 4019340DNAArtificial SequenceSynthetic primer
193tcataatcat aataggtcag cgcgcgcgcg caataataaa 4019440DNAArtificial
SequenceSynthetic primer 194ctgacctatt atgattatga atttgcgtat
tggggccagg 4019540DNAArtificial SequenceSynthetic primer
195gctcacggtc accagggtgc cctggcccca atacgcaaat 4019640DNAArtificial
SequenceSynthetic primer 196gcaccctggt gaccgtgagc gcgggtggta
gcggtagcgg 4019740DNAArtificial SequenceSynthetic primer
197taccgccgcc tccagatcct ccgctaccgc taccacccgc 4019840DNAArtificial
SequenceSynthetic primer 198aggatctgga ggcggcggta gtagtggtgg
aggatccggt 4019940DNAArtificial SequenceSynthetic primer
199tggtgatggc ggccgcggcc accggatcct ccaccactac 4020040DNAArtificial
SequenceSynthetic primer 200cgagctagct ccctctacgc tcccctgttg
aagctctttg 4020127DNAArtificial SequenceSynthetic primer
201acaagcgcgt tgagcccaaa tcttgtg 2720228DNAArtificial
SequenceSynthetic primer 202cagttcatcc cgggatgggg gcagggtg
2820338DNAArtificial SequenceSynthetic primer 203ccccatcccg
ggatgaactg accaagaacc aggtcagc 3820425DNAArtificial
SequenceSynthetic primer 204ctggccacct aggactcatt taccc
2520538DNAArtificial SequenceSynthetic primer 205gcactggtct
cgaattcgga tattctgctg acccagag 3820636DNAArtificial
SequenceSynthetic primer 206ggtgcggtct ccgtacgttt cagttccagt ttggtg
3620738DNAArtificial SequenceSynthetic primer 207gcactggtct
cgaattcgca ggtgcagctg aaacagag 3820835DNAArtificial
SequenceSynthetic primer 208gagacggtct cgctagccgc gctcacggtc accag
3520948DNAArtificial SequenceSynthetic primer 209tgcgtatgca
agatctggta gcggtaccga tattctgctg acccagag 4821061DNAArtificial
SequenceSynthetic primer 210actactaccg ccgcctccag atcctccgct
accgctacca cctttcagtt ccagtttggt 60g 6121159DNAArtificial
SequenceSynthetic primer 211tctggaggcg gcggtagtag tggtggaggc
tcaggcggcc aggtgcagct gaaacagag 5921237DNAArtificial
SequenceSynthetic primer 212gatggtgatg gcggccgcgc gcgctcacgg
tcaccag 3721340DNAArtificial SequenceSynthetic primer 213tgtcggatcc
accgctaccg cccgcgctca cggtcaccag 4021475DNAArtificial
SequenceSynthetic primer 214tcacgaattc gcaaggccag tctggccagg
gctcgagcgg tggcagcggt ggctctggtg 60gatccggcgg tggca
7521575DNAArtificial SequenceSynthetic primer 215tggtggatcc
ggcggtggca gcggtggtgg ctccggcggt accggcggta gcggtagatc 60tgacaaaact
cacac 7521643DNAArtificial SequenceSynthetic primer 216gatccccgtc
tccgccagtc aaaatgatgc cggaaggcgg tac 4321735DNAArtificial
SequenceSynthetic primer 217cgccttccgg catcattttg actggcggag acggg
3521814PRTArtificial SequenceSynthetic peptide 218Cys Ile Ser Pro
Arg Gly Cys Pro Asp Gly Pro Tyr Val Met 1 5 10 21915PRTArtificial
SequenceSynthetic peptide 219Cys Ile Ser Pro Arg Gly Cys Glu Pro
Gly Thr Tyr Val Pro Thr 1 5 10 15 22015PRTArtificial
SequenceSynthetic peptide 220Cys Ile Ser Pro Arg Gly Cys Pro Gly
Gln Ile Trp His Pro Pro 1 5 10 15 2211347DNAArtificial
SequenceSynthetic polynucleotide 221caggtgcagc tgaaacagag
cggcccgggc ctggtgcagc cgagccagag cctgagcatt 60acctgcaccg tgagcggctt
tagcctgacc aactatggcg tgcattgggt gcgccagagc 120ccgggcaaag
gcctggaatg gctgggcgtg atttggagcg gcggcaacac cgattataac
180accccgttta ccagccgcct gagcattaac aaagataaca gcaaaagcca
ggtgtttttt 240aaaatgaaca gcctgcaaag caacgatacc gcgatttatt
attgcgcgcg cgcgctgacc 300tattatgatt atgaatttgc gtattggggc
cagggcaccc tggtgaccgt gagcgcggct 360agcaccaagg gcccatcggt
cttccccctg gcaccctcct ccaagagcac ctctgggggc 420acagcggccc
tgggctgcct ggtcaaggac tacttccccg aaccggtgac ggtgtcgtgg
480aactcaggcg ccctgaccag cggcgtgcac accttcccgg ctgtcctaca
gtcctcagga 540ctctactccc tcagcagcgt ggtgaccgtg ccctccagca
gcttgggcac ccagacctac 600atctgcaacg tgaatcacaa gcccagcaac
accaaggtgg acaagcgcgt tgagcccaaa 660tcttgtgaca aaactcacac
atgcccaccg tgcccagcac ctgaactcct ggggggaccg 720tcagtcttcc
tcttcccccc aaaacccaag gacaccctca tgatctcccg gacccctgag
780gtcacatgcg tggtggtgga cgtgagccac gaagaccctg aggtcaagtt
caactggtac 840gtggacggcg tggaggtgca taatgccaag acaaagccgc
gggaggagca gtacaacagc 900acgtaccgtg tggtcagcgt cctcaccgtc
ctgcaccagg actggctgaa tggcaaggag 960tacaagtgca aggtctccaa
caaagccctc ccagccccca tcgagaaaac catctccaaa 1020gccaaagggc
agccccgaga accacaggtg tacaccctgc ccccatcccg ggatgaactg
1080accaagaacc aggtcagcct gacctgcctg gtcaaaggct tctatcccag
cgacatcgcc 1140gtggagtggg agagcaatgg gcagccggag aacaactaca
agaccacgcc tcccgtgctg 1200gactccgacg gctccttctt cctctacagc
aagctcaccg tggacaagag caggtggcag 1260caggggaacg tcttctcatg
ctccgtgatg catgaggctc tgcacaacca ctacacgcag 1320aagagcctct
ccctgtctcc gggtaaa 1347222449PRTArtificial SequenceSynthetic
polypeptide 222Gln Val Gln Leu Lys Gln Ser Gly Pro Gly Leu Val Gln
Pro Ser Gln 1 5 10 15 Ser Leu Ser Ile Thr Cys Thr Val Ser Gly Phe
Ser Leu Thr Asn Tyr 20 25 30 Gly Val His Trp Val Arg Gln Ser Pro
Gly Lys Gly Leu Glu Trp Leu 35 40 45 Gly Val Ile Trp Ser Gly Gly
Asn Thr Asp Tyr Asn Thr Pro Phe Thr 50 55 60 Ser Arg Leu Ser Ile
Asn Lys Asp Asn Ser Lys Ser Gln Val Phe Phe 65 70 75 80 Lys Met Asn
Ser Leu Gln Ser Asn Asp Thr Ala Ile Tyr Tyr Cys Ala 85 90 95 Arg
Ala Leu Thr Tyr Tyr Asp Tyr Glu Phe Ala Tyr Trp Gly Gln Gly 100 105
110 Thr Leu Val Thr Val Ser Ala Ala Ser Thr Lys Gly Pro Ser Val Phe
115 120 125 Pro Leu Ala Pro Ser Ser Lys Ser Thr Ser Gly Gly Thr Ala
Ala Leu 130 135 140 Gly Cys Leu Val Lys Asp Tyr Phe Pro Glu Pro Val
Thr Val Ser Trp 145 150 155 160 Asn Ser Gly Ala Leu Thr Ser Gly Val
His Thr Phe Pro Ala Val Leu 165 170 175 Gln Ser Ser Gly Leu Tyr Ser
Leu Ser Ser Val Val Thr Val Pro Ser 180 185 190 Ser Ser Leu Gly Thr
Gln Thr Tyr Ile Cys Asn Val Asn His Lys Pro 195 200 205 Ser Asn Thr
Lys Val Asp Lys Arg Val Glu Pro Lys Ser Cys Asp Lys 210 215 220 Thr
His Thr Cys Pro Pro Cys Pro Ala Pro Glu Leu Leu Gly Gly Pro 225 230
235 240 Ser Val Phe Leu Phe Pro Pro Lys Pro Lys Asp Thr Leu Met Ile
Ser 245 250 255 Arg Thr Pro Glu Val Thr Cys Val Val Val Asp Val Ser
His Glu Asp 260 265 270 Pro Glu Val Lys Phe Asn Trp Tyr Val Asp Gly
Val Glu Val His Asn 275 280 285 Ala Lys Thr Lys Pro Arg Glu Glu Gln
Tyr Asn Ser Thr Tyr Arg Val 290 295 300 Val Ser Val Leu Thr Val Leu
His Gln Asp Trp Leu Asn Gly Lys Glu 305 310 315 320 Tyr Lys Cys Lys
Val Ser Asn Lys Ala Leu Pro Ala Pro Ile Glu Lys 325 330 335 Thr Ile
Ser Lys Ala Lys Gly Gln Pro Arg Glu Pro Gln Val Tyr Thr 340 345 350
Leu Pro Pro Ser Arg Asp Glu Leu Thr Lys Asn Gln Val Ser Leu Thr 355
360 365 Cys Leu Val Lys Gly Phe Tyr Pro Ser Asp Ile Ala Val Glu Trp
Glu 370 375 380 Ser Asn Gly Gln Pro Glu Asn Asn Tyr Lys Thr Thr Pro
Pro Val Leu 385 390 395 400 Asp Ser Asp Gly Ser Phe Phe Leu Tyr Ser
Lys Leu Thr Val Asp Lys 405 410 415 Ser Arg Trp Gln Gln Gly Asn Val
Phe Ser Cys Ser Val Met His Glu 420 425 430 Ala Leu His Asn His Tyr
Thr Gln Lys Ser Leu Ser Leu Ser Pro Gly 435 440 445 Lys
223756DNAArtificial SequenceSynthetic polynucleotide 223caaggccagt
ctggccagtg catctcgccc cgtggttgtg gaggctcgag cggtggcagc 60ggtggctctg
gtggatcccc gtctccgcca gtcaaaatga tgccggaagg cggtacccag
120atcttgctga cccagagccc ggtgattctg agcgtgagcc cgggcgaacg
tgtgagcttt 180agctgccgcg cgagccagag cattggcacc aacattcatt
ggtatcagca gcgcaccaac 240ggcagcccgc gcctgctgat taaatatgcg
agcgaaagca ttagcggcat tccgagccgc 300tttagcggca gcggcagcgg
caccgatttt accctgagca ttaacagcgt ggaaagcgaa 360gatattgcgg
attattattg ccagcagaac aacaactggc cgaccacctt tggcgcgggc
420accaaactgg aactgaaacg tacggtggct gcaccatctg tcttcatctt
cccgccatct 480gatgagcagt tgaaatctgg aactgcctct gttgtgtgcc
tgctgaataa cttctatccc 540agagaggcca aagtacagtg gaaggtggat
aacgccctcc aatcgggtaa ctcccaggag 600agtgtcacag agcaggacag
caaggacagc acctacagcc tcagcagcac cctgacgctg 660agcaaagcag
actacgagaa acacaaagtc tacgcctgcg aagtcaccca tcagggcctg
720agctcgcccg tcacaaagag cttcaacagg ggagcg 756224252PRTArtificial
SequenceSynthetic polypeptide 224Gln Gly Gln Ser Gly Gln Cys Ile
Ser Pro Arg Gly Cys Gly Gly Ser 1 5 10 15 Ser Gly Gly Ser Gly Gly
Ser Gly Gly Ser Pro Ser Pro Pro Val Lys 20 25 30 Met Met Pro Glu
Gly Gly Thr Gln Ile Leu Leu Thr Gln Ser Pro Val 35 40 45 Ile Leu
Ser Val Ser Pro Gly Glu Arg Val Ser Phe Ser Cys Arg Ala 50 55 60
Ser Gln Ser Ile Gly Thr Asn Ile His Trp Tyr Gln Gln Arg Thr Asn 65
70 75 80 Gly Ser Pro Arg Leu Leu Ile Lys Tyr Ala Ser Glu Ser Ile
Ser Gly 85 90 95 Ile Pro Ser Arg Phe Ser Gly Ser Gly Ser Gly Thr
Asp Phe Thr Leu 100 105 110 Ser Ile Asn Ser Val Glu Ser Glu Asp Ile
Ala Asp Tyr Tyr Cys Gln 115 120 125 Gln Asn Asn Asn Trp Pro Thr Thr
Phe Gly Ala Gly Thr Lys Leu Glu 130 135 140 Leu Lys Arg Thr Val Ala
Ala Pro Ser Val Phe Ile Phe Pro Pro Ser 145 150 155 160 Asp Glu Gln
Leu Lys Ser Gly Thr Ala Ser Val Val Cys Leu Leu Asn 165 170 175 Asn
Phe Tyr Pro Arg Glu Ala Lys Val Gln Trp Lys Val Asp Asn Ala 180 185
190 Leu Gln Ser Gly Asn Ser Gln Glu Ser Val Thr Glu Gln Asp Ser Lys
195 200 205 Asp Ser Thr Tyr Ser Leu Ser Ser Thr Leu Thr Leu Ser Lys
Ala Asp 210 215 220 Tyr Glu Lys His Lys Val Tyr Ala Cys Glu Val Thr
His Gln Gly Leu 225 230 235 240 Ser Ser Pro Val Thr Lys Ser Phe Asn
Arg Gly Ala 245 250 225771DNAArtificial SequenceSynthetic
polynucleotide 225caaggccagt ctggccaggg ttcacattgt ctcattccta
ttaacatggg cgcgccgtca 60tgcggctcga gcggtggcag cggtggctct ggtggatccg
gcggtggcag cggtggtggc 120tccggcggta cccagatctt gctgacccag
agcccggtga ttctgagcgt gagcccgggc 180gaacgtgtga gctttagctg
ccgcgcgagc cagagcattg gcaccaacat tcattggtat 240cagcagcgca
ccaacggcag cccgcgcctg ctgattaaat atgcgagcga aagcattagc
300ggcattccga gccgctttag cggcagcggc agcggcaccg attttaccct
gagcattaac 360agcgtggaaa gcgaagatat tgcggattat tattgccagc
agaacaacaa ctggccgacc 420acctttggcg cgggcaccaa actggaactg
aaacgtacgg tggctgcacc atctgtcttc 480atcttcccgc catctgatga
gcagttgaaa tctggaactg cctctgttgt gtgcctgctg 540aataacttct
atcccagaga ggccaaagta cagtggaagg tggataacgc cctccaatcg
600ggtaactccc aggagagtgt cacagagcag gacagcaagg acagcaccta
cagcctcagc 660agcaccctga cgctgagcaa agcagactac gagaaacaca
aagtctacgc ctgcgaagtc 720acccatcagg gcctgagctc gcccgtcaca
aagagcttca acaggggagc g 771226257PRTArtificial SequenceSynthetic
polypeptide 226Gln Gly Gln Ser Gly Gln Gly Ser His Cys Leu Ile Pro
Ile Asn Met 1 5 10 15 Gly Ala Pro Ser Cys Gly Ser Ser Gly
Gly Ser Gly Gly Ser Gly Gly 20 25 30 Ser Gly Gly Gly Ser Gly Gly
Gly Ser Gly Gly Thr Gln Ile Leu Leu 35 40 45 Thr Gln Ser Pro Val
Ile Leu Ser Val Ser Pro Gly Glu Arg Val Ser 50 55 60 Phe Ser Cys
Arg Ala Ser Gln Ser Ile Gly Thr Asn Ile His Trp Tyr 65 70 75 80 Gln
Gln Arg Thr Asn Gly Ser Pro Arg Leu Leu Ile Lys Tyr Ala Ser 85 90
95 Glu Ser Ile Ser Gly Ile Pro Ser Arg Phe Ser Gly Ser Gly Ser Gly
100 105 110 Thr Asp Phe Thr Leu Ser Ile Asn Ser Val Glu Ser Glu Asp
Ile Ala 115 120 125 Asp Tyr Tyr Cys Gln Gln Asn Asn Asn Trp Pro Thr
Thr Phe Gly Ala 130 135 140 Gly Thr Lys Leu Glu Leu Lys Arg Thr Val
Ala Ala Pro Ser Val Phe 145 150 155 160 Ile Phe Pro Pro Ser Asp Glu
Gln Leu Lys Ser Gly Thr Ala Ser Val 165 170 175 Val Cys Leu Leu Asn
Asn Phe Tyr Pro Arg Glu Ala Lys Val Gln Trp 180 185 190 Lys Val Asp
Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu Ser Val Thr 195 200 205 Glu
Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser Ser Thr Leu Thr 210 215
220 Leu Ser Lys Ala Asp Tyr Glu Lys His Lys Val Tyr Ala Cys Glu Val
225 230 235 240 Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser Phe
Asn Arg Gly 245 250 255 Ala 227828DNAArtificial SequenceSynthetic
polynucleotide 227caaggccagt ctggccagtg catctcgccc cgtggttgtg
gaggctcgag cgctagccag 60tctggccagg gttcacattg tctcattcct attaacatgg
gcgcgccgtc atgcggctcg 120agcggtggca gcggtggctc tggtggatcc
ccgtctccgc cagtcaaaat gatgccggaa 180ggcggtaccc agatcttgct
gacccagagc ccggtgattc tgagcgtgag cccgggcgaa 240cgtgtgagct
ttagctgccg cgcgagccag agcattggca ccaacattca ttggtatcag
300cagcgcacca acggcagccc gcgcctgctg attaaatatg cgagcgaaag
cattagcggc 360attccgagcc gctttagcgg cagcggcagc ggcaccgatt
ttaccctgag cattaacagc 420gtggaaagcg aagatattgc ggattattat
tgccagcaga acaacaactg gccgaccacc 480tttggcgcgg gcaccaaact
ggaactgaaa cgtacggtgg ctgcaccatc tgtcttcatc 540ttcccgccat
ctgatgagca gttgaaatct ggaactgcct ctgttgtgtg cctgctgaat
600aacttctatc ccagagaggc caaagtacag tggaaggtgg ataacgccct
ccaatcgggt 660aactcccagg agagtgtcac agagcaggac agcaaggaca
gcacctacag cctcagcagc 720accctgacgc tgagcaaagc agactacgag
aaacacaaag tctacgcctg cgaagtcacc 780catcagggcc tgagctcgcc
cgtcacaaag agcttcaaca ggggagcg 828228276PRTArtificial
SequenceSynthetic polypeptide 228Gln Gly Gln Ser Gly Gln Cys Ile
Ser Pro Arg Gly Cys Gly Gly Ser 1 5 10 15 Ser Ala Ser Gln Ser Gly
Gln Gly Ser His Cys Leu Ile Pro Ile Asn 20 25 30 Met Gly Ala Pro
Ser Cys Gly Ser Ser Gly Gly Ser Gly Gly Ser Gly 35 40 45 Gly Ser
Pro Ser Pro Pro Val Lys Met Met Pro Glu Gly Gly Thr Gln 50 55 60
Ile Leu Leu Thr Gln Ser Pro Val Ile Leu Ser Val Ser Pro Gly Glu 65
70 75 80 Arg Val Ser Phe Ser Cys Arg Ala Ser Gln Ser Ile Gly Thr
Asn Ile 85 90 95 His Trp Tyr Gln Gln Arg Thr Asn Gly Ser Pro Arg
Leu Leu Ile Lys 100 105 110 Tyr Ala Ser Glu Ser Ile Ser Gly Ile Pro
Ser Arg Phe Ser Gly Ser 115 120 125 Gly Ser Gly Thr Asp Phe Thr Leu
Ser Ile Asn Ser Val Glu Ser Glu 130 135 140 Asp Ile Ala Asp Tyr Tyr
Cys Gln Gln Asn Asn Asn Trp Pro Thr Thr 145 150 155 160 Phe Gly Ala
Gly Thr Lys Leu Glu Leu Lys Arg Thr Val Ala Ala Pro 165 170 175 Ser
Val Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr 180 185
190 Ala Ser Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys
195 200 205 Val Gln Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser
Gln Glu 210 215 220 Ser Val Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr
Ser Leu Ser Ser 225 230 235 240 Thr Leu Thr Leu Ser Lys Ala Asp Tyr
Glu Lys His Lys Val Tyr Ala 245 250 255 Cys Glu Val Thr His Gln Gly
Leu Ser Ser Pro Val Thr Lys Ser Phe 260 265 270 Asn Arg Gly Ala 275
229771DNAArtificial SequenceSynthetic polynucleotide 229caaggccagt
ctggccagtg catctcacct cgtggttgtc cggacggccc atacgtcatg 60tacggctcga
gcggtggcag cggtggctct ggtggatccg gcggtggcag cggtggtggc
120tccggcggta cccagatctt gctgacccag agcccggtga ttctgagcgt
gagcccgggc 180gaacgtgtga gctttagctg ccgcgcgagc cagagcattg
gcaccaacat tcattggtat 240cagcagcgca ccaacggcag cccgcgcctg
ctgattaaat atgcgagcga aagcattagc 300ggcattccga gccgctttag
cggcagcggc agcggcaccg attttaccct gagcattaac 360agcgtggaaa
gcgaagatat tgcggattat tattgccagc agaacaacaa ctggccgacc
420acctttggcg cgggcaccaa actggaactg aaacgtacgg tggctgcacc
atctgtcttc 480atcttcccgc catctgatga gcagttgaaa tctggaactg
cctctgttgt gtgcctgctg 540aataacttct atcccagaga ggccaaagta
cagtggaagg tggataacgc cctccaatcg 600ggtaactccc aggagagtgt
cacagagcag gacagcaagg acagcaccta cagcctcagc 660agcaccctga
cgctgagcaa agcagactac gagaaacaca aagtctacgc ctgcgaagtc
720acccatcagg gcctgagctc gcccgtcaca aagagcttca acaggggagc g
771230257PRTArtificial SequenceSynthetic polypeptide 230Gln Gly Gln
Ser Gly Gln Cys Ile Ser Pro Arg Gly Cys Pro Asp Gly 1 5 10 15 Pro
Tyr Val Met Tyr Gly Ser Ser Gly Gly Ser Gly Gly Ser Gly Gly 20 25
30 Ser Gly Gly Gly Ser Gly Gly Gly Ser Gly Gly Thr Gln Ile Leu Leu
35 40 45 Thr Gln Ser Pro Val Ile Leu Ser Val Ser Pro Gly Glu Arg
Val Ser 50 55 60 Phe Ser Cys Arg Ala Ser Gln Ser Ile Gly Thr Asn
Ile His Trp Tyr 65 70 75 80 Gln Gln Arg Thr Asn Gly Ser Pro Arg Leu
Leu Ile Lys Tyr Ala Ser 85 90 95 Glu Ser Ile Ser Gly Ile Pro Ser
Arg Phe Ser Gly Ser Gly Ser Gly 100 105 110 Thr Asp Phe Thr Leu Ser
Ile Asn Ser Val Glu Ser Glu Asp Ile Ala 115 120 125 Asp Tyr Tyr Cys
Gln Gln Asn Asn Asn Trp Pro Thr Thr Phe Gly Ala 130 135 140 Gly Thr
Lys Leu Glu Leu Lys Arg Thr Val Ala Ala Pro Ser Val Phe 145 150 155
160 Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser Val
165 170 175 Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val
Gln Trp 180 185 190 Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln
Glu Ser Val Thr 195 200 205 Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser
Leu Ser Ser Thr Leu Thr 210 215 220 Leu Ser Lys Ala Asp Tyr Glu Lys
His Lys Val Tyr Ala Cys Glu Val 225 230 235 240 Thr His Gln Gly Leu
Ser Ser Pro Val Thr Lys Ser Phe Asn Arg Gly 245 250 255 Ala
231771DNAArtificial SequenceSynthetic polynucleotide 231caaggccagt
ctggccagtg catctcacct cgtggttgtg agcctggcac ctatgttcca 60acaggctcga
gcggtggcag cggtggctct ggtggatccg gcggtggcag cggtggtggc
120tccggcggta cccagatctt gctgacccag agcccggtga ttctgagcgt
gagcccgggc 180gaacgtgtga gctttagctg ccgcgcgagc cagagcattg
gcaccaacat tcattggtat 240cagcagcgca ccaacggcag cccgcgcctg
ctgattaaat atgcgagcga aagcattagc 300ggcattccga gccgctttag
cggcagcggc agcggcaccg attttaccct gagcattaac 360agcgtggaaa
gcgaagatat tgcggattat tattgccagc agaacaacaa ctggccgacc
420acctttggcg cgggcaccaa actggaactg aaacgtacgg tggctgcacc
atctgtcttc 480atcttcccgc catctgatga gcagttgaaa tctggaactg
cctctgttgt gtgcctgctg 540aataacttct atcccagaga ggccaaagta
cagtggaagg tggataacgc cctccaatcg 600ggtaactccc aggagagtgt
cacagagcag gacagcaagg acagcaccta cagcctcagc 660agcaccctga
cgctgagcaa agcagactac gagaaacaca aagtctacgc ctgcgaagtc
720acccatcagg gcctgagctc gcccgtcaca aagagcttca acaggggagc g
771232257PRTArtificial SequenceSynthetic polypeptide 232Gln Gly Gln
Ser Gly Gln Cys Ile Ser Pro Arg Gly Cys Glu Pro Gly 1 5 10 15 Thr
Tyr Val Pro Thr Gly Ser Ser Gly Gly Ser Gly Gly Ser Gly Gly 20 25
30 Ser Gly Gly Gly Ser Gly Gly Gly Ser Gly Gly Thr Gln Ile Leu Leu
35 40 45 Thr Gln Ser Pro Val Ile Leu Ser Val Ser Pro Gly Glu Arg
Val Ser 50 55 60 Phe Ser Cys Arg Ala Ser Gln Ser Ile Gly Thr Asn
Ile His Trp Tyr 65 70 75 80 Gln Gln Arg Thr Asn Gly Ser Pro Arg Leu
Leu Ile Lys Tyr Ala Ser 85 90 95 Glu Ser Ile Ser Gly Ile Pro Ser
Arg Phe Ser Gly Ser Gly Ser Gly 100 105 110 Thr Asp Phe Thr Leu Ser
Ile Asn Ser Val Glu Ser Glu Asp Ile Ala 115 120 125 Asp Tyr Tyr Cys
Gln Gln Asn Asn Asn Trp Pro Thr Thr Phe Gly Ala 130 135 140 Gly Thr
Lys Leu Glu Leu Lys Arg Thr Val Ala Ala Pro Ser Val Phe 145 150 155
160 Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser Val
165 170 175 Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val
Gln Trp 180 185 190 Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln
Glu Ser Val Thr 195 200 205 Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser
Leu Ser Ser Thr Leu Thr 210 215 220 Leu Ser Lys Ala Asp Tyr Glu Lys
His Lys Val Tyr Ala Cys Glu Val 225 230 235 240 Thr His Gln Gly Leu
Ser Ser Pro Val Thr Lys Ser Phe Asn Arg Gly 245 250 255 Ala
233771DNAArtificial SequenceSynthetic polynucleotide 233caaggccagt
ctggccagtg catctcacct cgtggttgtc cgggccaaat ttggcatcca 60cctggctcga
gcggtggcag cggtggctct ggtggatccg gcggtggcag cggtggtggc
120tccggcggta cccagatctt gctgacccag agcccggtga ttctgagcgt
gagcccgggc 180gaacgtgtga gctttagctg ccgcgcgagc cagagcattg
gcaccaacat tcattggtat 240cagcagcgca ccaacggcag cccgcgcctg
ctgattaaat atgcgagcga aagcattagc 300ggcattccga gccgctttag
cggcagcggc agcggcaccg attttaccct gagcattaac 360agcgtggaaa
gcgaagatat tgcggattat tattgccagc agaacaacaa ctggccgacc
420acctttggcg cgggcaccaa actggaactg aaacgtacgg tggctgcacc
atctgtcttc 480atcttcccgc catctgatga gcagttgaaa tctggaactg
cctctgttgt gtgcctgctg 540aataacttct atcccagaga ggccaaagta
cagtggaagg tggataacgc cctccaatcg 600ggtaactccc aggagagtgt
cacagagcag gacagcaagg acagcaccta cagcctcagc 660agcaccctga
cgctgagcaa agcagactac gagaaacaca aagtctacgc ctgcgaagtc
720acccatcagg gcctgagctc gcccgtcaca aagagcttca acaggggagc g
771234257PRTArtificial SequenceSynthetic polypeptide 234Gln Gly Gln
Ser Gly Gln Cys Ile Ser Pro Arg Gly Cys Pro Gly Gln 1 5 10 15 Ile
Trp His Pro Pro Gly Ser Ser Gly Gly Ser Gly Gly Ser Gly Gly 20 25
30 Ser Gly Gly Gly Ser Gly Gly Gly Ser Gly Gly Thr Gln Ile Leu Leu
35 40 45 Thr Gln Ser Pro Val Ile Leu Ser Val Ser Pro Gly Glu Arg
Val Ser 50 55 60 Phe Ser Cys Arg Ala Ser Gln Ser Ile Gly Thr Asn
Ile His Trp Tyr 65 70 75 80 Gln Gln Arg Thr Asn Gly Ser Pro Arg Leu
Leu Ile Lys Tyr Ala Ser 85 90 95 Glu Ser Ile Ser Gly Ile Pro Ser
Arg Phe Ser Gly Ser Gly Ser Gly 100 105 110 Thr Asp Phe Thr Leu Ser
Ile Asn Ser Val Glu Ser Glu Asp Ile Ala 115 120 125 Asp Tyr Tyr Cys
Gln Gln Asn Asn Asn Trp Pro Thr Thr Phe Gly Ala 130 135 140 Gly Thr
Lys Leu Glu Leu Lys Arg Thr Val Ala Ala Pro Ser Val Phe 145 150 155
160 Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser Val
165 170 175 Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val
Gln Trp 180 185 190 Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln
Glu Ser Val Thr 195 200 205 Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser
Leu Ser Ser Thr Leu Thr 210 215 220 Leu Ser Lys Ala Asp Tyr Glu Lys
His Lys Val Tyr Ala Cys Glu Val 225 230 235 240 Thr His Gln Gly Leu
Ser Ser Pro Val Thr Lys Ser Phe Asn Arg Gly 245 250 255 Ala
2358PRTArtificial SequenceSynthetic peptide 235Ser Gly Gly Gly Ser
Gly Gly Gly 1 5 23615PRTArtificial SequenceSynthetic peptide 236Gly
Ser His Cys Leu Ile Pro Ile Asn Met Gly Ala Pro Ser Cys 1 5 10 15
23732PRTArtificial SequenceSynthetic polypeptide 237Cys Ile Ser Pro
Arg Gly Cys Gly Gly Ser Ser Ala Ser Gln Ser Gly 1 5 10 15 Gln Gly
Ser His Cys Leu Ile Pro Ile Asn Met Gly Ala Pro Ser Cys 20 25 30
23815PRTArtificial SequenceSynthetic peptide 238Cys Ile Ser Pro Arg
Gly Cys Pro Asp Gly Pro Tyr Val Met Tyr 1 5 10 15
23915PRTArtificial SequenceSynthetic peptide 239Cys Ile Ser Pro Arg
Gly Cys Glu Pro Gly Thr Tyr Val Pro Thr 1 5 10 15
24015PRTArtificial SequenceSynthetic peptide 240Cys Ile Ser Pro Arg
Gly Cys Pro Gly Gln Ile Trp His Pro Pro 1 5 10 15
24119PRTArtificial SequenceSynthetic peptide 241Cys Asn His His Tyr
Phe Tyr Thr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24219PRTArtificial SequenceSynthetic peptide 242Ala Asp His Val Phe
Trp Gly Ser Tyr Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24319PRTArtificial SequenceSynthetic peptide 243Cys His His Val Tyr
Trp Gly His Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24419PRTArtificial SequenceSynthetic peptide 244Cys Pro His Phe Thr
Thr Thr Ser Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24519PRTArtificial SequenceSynthetic peptide 245Cys Asn His His Tyr
His Tyr Tyr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24619PRTArtificial SequenceSynthetic peptide 246Cys Pro His Val Ser
Phe Gly Ser Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24719PRTArtificial SequenceSynthetic peptide 247Cys Pro Tyr Tyr Thr
Leu Ser Tyr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24819PRTArtificial SequenceSynthetic peptide 248Cys Asn His Val Tyr
Phe Gly Thr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
24919PRTArtificial SequenceSynthetic peptide 249Cys Asn His Phe Thr
Leu Thr Thr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
25019PRTArtificial SequenceSynthetic peptide 250Cys His His Phe Thr
Leu Thr Thr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Pro Gly
25118PRTArtificial SequenceSynthetic peptide 251Tyr Asn Pro Cys Ala
Thr Pro Met Cys Cys Ile Ser Pro Arg Gly Cys 1 5 10 15 Pro Gly
25218PRTArtificial SequenceSynthetic consensus peptide 252Cys Asn
His His Tyr Phe Tyr Thr Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15
Cys Gly 25318PRTArtificial SequenceSynthetic consensus peptide
253Cys Asn His His Tyr His Tyr Tyr Cys Gly Cys Ile Ser Pro Arg Gly
1 5 10 15 Cys Gly 25418PRTArtificial SequenceSynthetic consensus
peptide 254Cys Asn His Val Tyr Phe Gly Thr Cys Gly Cys Ile
Ser Pro Arg Gly 1 5 10 15 Cys Gly 25518PRTArtificial
SequenceSynthetic consensus peptide 255Cys His His Val Tyr Trp Gly
His Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Gly
25618PRTArtificial SequenceSynthetic consensus peptide 256Cys Pro
His Phe Thr Thr Thr Ser Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15
Cys Gly 25718PRTArtificial SequenceSynthetic consensus peptide
257Cys Asn His Phe Thr Leu Thr Thr Cys Gly Cys Ile Ser Pro Arg Gly
1 5 10 15 Cys Gly 25818PRTArtificial SequenceSynthetic consensus
peptide 258Cys His His Phe Thr Leu Thr Thr Cys Gly Cys Ile Ser Pro
Arg Gly 1 5 10 15 Cys Gly 25918PRTArtificial SequenceSynthetic
consensus peptide 259Cys Pro Tyr Tyr Thr Leu Ser Tyr Cys Gly Cys
Ile Ser Pro Arg Gly 1 5 10 15 Cys Gly 26018PRTArtificial
SequenceSynthetic consensus peptide 260Cys Pro His Val Ser Phe Gly
Ser Cys Gly Cys Ile Ser Pro Arg Gly 1 5 10 15 Cys Gly
26118PRTArtificial SequenceSynthetic consensus peptide 261Ala Asp
His Val Phe Trp Gly Ser Tyr Gly Cys Ile Ser Pro Arg Gly 1 5 10 15
Cys Gly 26217PRTArtificial SequenceSynthetic consensus peptide
262Tyr Asn Pro Cys Ala Thr Pro Met Cys Cys Ile Ser Pro Arg Gly Cys
1 5 10 15 Gly 26318PRTArtificial SequenceSynthetic consensus
peptide 263Cys His His Val Tyr Trp Gly His Cys Gly Cys Ile Ser Pro
Arg Gly 1 5 10 15 Cys Gly 26415PRTArtificial SequenceSynthetic
consensus peptide 264Cys Ile Ser Pro Arg Gly Cys Gly Gln Pro Ile
Pro Ser Val Lys 1 5 10 15 26515PRTArtificial SequenceSynthetic
consensus peptide 265Cys Ile Ser Pro Arg Gly Cys Thr Gln Pro Tyr
His Val Ser Arg 1 5 10 15 26615PRTArtificial SequenceSynthetic
consensus peptide 266Cys Ile Ser Pro Arg Gly Cys Asn Ala Val Ser
Gly Leu Gly Ser 1 5 10 15 2678PRTArtificial SequenceSynthetic
consensus peptide 267Thr Gly Arg Gly Pro Ser Trp Val 1 5
2688PRTArtificial SequenceSynthetic consensus peptide 268Ser Ala
Arg Gly Pro Ser Arg Trp 1 5 2698PRTArtificial SequenceSynthetic
consensus peptide 269Thr Ala Arg Gly Pro Ser Phe Lys 1 5
2707PRTArtificial SequenceSynthetic consensus peptide 270Thr Ala
Arg Gly Pro Ser Trp 1 5 2718PRTArtificial SequenceSynthetic
consensus peptide 271Leu Ser Gly Arg Ser Asp Asn His 1 5
2728PRTArtificial SequenceSynthetic consensus peptide 272Gly Gly
Trp His Thr Gly Arg Asn 1 5 2738PRTArtificial SequenceSynthetic
consensus peptide 273His Thr Gly Arg Ser Gly Ala Leu 1 5
2748PRTArtificial SequenceSynthetic consensus peptide 274Pro Leu
Thr Gly Arg Ser Gly Gly 1 5 2757PRTArtificial SequenceSynthetic
consensus peptide 275Leu Thr Gly Arg Ser Gly Ala 1 5
2768PRTArtificial SequenceSynthetic consensus peptide 276Ala Ala
Arg Gly Pro Ala Ile His 1 5 2778PRTArtificial SequenceSynthetic
consensus peptide 277Arg Gly Pro Ala Phe Asn Pro Met 1 5
2788PRTArtificial SequenceSynthetic consensus peptide 278Ser Ser
Arg Gly Pro Ala Tyr Leu 1 5 2798PRTArtificial SequenceSynthetic
consensus peptide 279Arg Gly Pro Ala Thr Pro Ile Met 1 5
2804PRTArtificial SequenceSynthetic consensus peptide 280Arg Gly
Pro Ala 1 28110PRTArtificial SequenceSynthetic peptide 281Glu His
Pro Arg Val Lys Val Val Ser Glu 1 5 10 28210PRTArtificial
SequenceSynthetic peptide 282Pro Pro Pro Asp Met Lys Leu Phe Pro
Gly 1 5 10 28310PRTArtificial SequenceSynthetic peptide 283Pro Pro
Pro Val Leu Lys Leu Leu Glu Trp 1 5 10 28410PRTArtificial
SequenceSynthetic peptide 284Val Leu Pro Glu Leu Arg Ser Val Phe
Ser 1 5 10 28510PRTArtificial SequenceSynthetic peptide 285Ala Pro
Pro Ser Phe Lys Leu Val Asn Ala 1 5 10 28610PRTArtificial
SequenceSynthetic peptide 286Pro Pro Pro Glu Val Arg Ser Phe Ser
Val 1 5 10 28710PRTArtificial SequenceSynthetic peptide 287Ala Leu
Pro Ser Val Lys Met Val Ser Glu 1 5 10 28810PRTArtificial
SequenceSynthetic peptide 288Glu Thr Pro Ser Val Lys Thr Met Gly
Arg 1 5 10 28910PRTArtificial SequenceSynthetic peptide 289Ala Ile
Pro Arg Val Arg Leu Phe Asp Val 1 5 10 29010PRTArtificial
SequenceSynthetic peptide 290Gly Leu Gly Thr Pro Arg Gly Leu Phe
Ala 1 5 10 29110PRTArtificial SequenceSynthetic peptide 291Asp Arg
Pro Lys Val Lys Thr Met Asp Phe 1 5 10 29210PRTArtificial
SequenceSynthetic peptide 292Arg Val Pro Lys Val Lys Val Met Leu
Asp 1 5 10 29310PRTArtificial SequenceSynthetic peptide 293Ala Pro
Pro Leu Val Lys Ser Met Val Val 1 5 10 29410PRTArtificial
SequenceSynthetic peptide 294Arg Glu Pro Phe Met Lys Ser Leu Pro
Trp 1 5 10 29510PRTArtificial SequenceSynthetic peptide 295Pro Val
Pro Arg Leu Lys Leu Ile Lys Asp 1 5 10 29610PRTArtificial
SequenceSynthetic peptide 296Lys Gly Pro Lys Val Lys Val Val Thr
Leu 1 5 10 29710PRTArtificial SequenceSynthetic peptide 297Glu Arg
Pro Gly Val Lys Ser Leu Val Leu 1 5 10 29810PRTArtificial
SequenceSynthetic peptide 298Asn Glx Pro Arg Val Arg Leu Val Leu
Pro 1 5 10 29910PRTArtificial SequenceSynthetic peptide 299Pro Arg
Pro Phe Val Lys Ser Val Asp Gln 1 5 10 30010PRTArtificial
SequenceSynthetic peptide 300Arg Phe Pro Ser Leu Lys Ser Phe Pro
Leu 1 5 10 30110PRTArtificial SequenceSynthetic peptide 301Glu Ser
Pro Val Met Lys Ser Met Ala Leu 1 5 10 30210PRTArtificial
SequenceSynthetic peptide 302Val Ala Pro Gln Leu Lys Ser Leu Val
Pro 1 5 10 30310PRTArtificial SequenceSynthetic peptide 303Ala Pro
Pro Leu Val Lys Ser Met Val Val 1 5 10 30410PRTArtificial
SequenceSynthetic peptide 304Asn Met Pro Ser Phe Lys Leu Val Thr
Gly 1 5 10 30510PRTArtificial SequenceSynthetic peptide 305Asp Arg
Pro Glu Met Lys Ser Leu Ser Gly 1 5 10 30610PRTArtificial
SequenceSynthetic peptide 306Glu Gln Pro Glu Val Lys Met Val Lys
Gly 1 5 10 30710PRTArtificial SequenceSynthetic peptide 307Ala Val
Pro Lys Val Arg Val Val Pro Glu 1 5 10 30810PRTArtificial
SequenceSynthetic peptide 308Asp Leu Pro Leu Val Lys Ser Leu Pro
Ser 1 5 10 30910PRTArtificial SequenceSynthetic peptide 309Glu Ala
Pro Lys Val Lys Ala Leu Pro Lys 1 5 10 31010PRTArtificial
SequenceSynthetic peptide 310Gly Phe Pro His Met Lys Thr Phe Gln
His 1 5 10 31110PRTArtificial SequenceSynthetic peptide 311Tyr Asp
Pro Glx Val Lys Val Val Leu Ala 1 5 10 31210PRTArtificial
SequenceSynthetic peptide 312Ala Ser Pro Thr Met Lys Thr Val Gly
Leu 1 5 10 31310PRTArtificial SequenceSynthetic peptide 313Asp Val
Pro Pro Met Lys Thr Leu Arg Pro 1 5 10 31410PRTArtificial
SequenceSynthetic peptide 314Ala Phe Pro Asp Met Arg Ser Val Arg
Ser 1 5 10 31510PRTArtificial SequenceSynthetic peptide 315Ser Ala
Pro Tyr Phe Arg Met Met Asp Met 1 5 10 31610PRTArtificial
SequenceSynthetic peptide 316Glu Lys Pro Arg Met Lys Leu Phe Gln
Gly 1 5 10 31710PRTArtificial SequenceSynthetic peptide 317Tyr Val
Pro Arg Val Lys Ala Leu Glu Met 1 5 10 318786DNAArtificial
SequenceSynthetic polynucleotide 318ggccagtctg gccagccgtg
ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag
cggccaaggt ggccaaggta ctggccgtgg tccaagctgg 120gttggcagta
gcggcggttc tgatattcaa ctgacccaga gcccttcttc cctgagtgcc
180agcgtgggtg accgtgttac gatcacttgc tcggccagcc aagatatttc
taactacctg 240aattggtacc agcagaagcc aggaaaggca ccaaaagtcc
tgatctactt cacaagttca 300ctgcattccg gcgtaccgtc gcgctttagc
ggttctggca gtggtaccga cttcaccctg 360actatctcga gtctgcaacc
tgaggatttt gctacatatt actgtcagca atattcgacc 420gtgccgtgga
cgttcgggca gggcaccaaa gtggagatta agcgtacggt ggctgcacca
480tctgtcttca tcttcccgcc atctgatgag cagttgaaat ctggaactgc
ctctgttgtg 540tgcctgctga ataacttcta tcccagagag gccaaagtac
agtggaaggt ggataacgcc 600ctccaatcgg gtaactccca ggagagtgtc
acagagcagg acagcaagga cagcacctac 660agcctcagca gcaccctgac
gctgagcaaa gcagactacg agaaacacaa agtctacgcc 720tgcgaagtca
cccatcaggg cctgagctcg cccgtcacaa agagcttcaa caggggagag 780tgttag
786319261PRTArtificial SequenceSynthetic polypeptide 319Gly Gln Ser
Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg
Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25
30 Gly Thr Gly Arg Gly Pro Ser Trp Val Gly Ser Ser Gly Gly Ser Asp
35 40 45 Ile Gln Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val
Gly Asp 50 55 60 Arg Val Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile
Ser Asn Tyr Leu 65 70 75 80 Asn Trp Tyr Gln Gln Lys Pro Gly Lys Ala
Pro Lys Val Leu Ile Tyr 85 90 95 Phe Thr Ser Ser Leu His Ser Gly
Val Pro Ser Arg Phe Ser Gly Ser 100 105 110 Gly Ser Gly Thr Asp Phe
Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu 115 120 125 Asp Phe Ala Thr
Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr 130 135 140 Phe Gly
Gln Gly Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro 145 150 155
160 Ser Val Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr
165 170 175 Ala Ser Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu
Ala Lys 180 185 190 Val Gln Trp Lys Val Asp Asn Ala Leu Gln Ser Gly
Asn Ser Gln Glu 195 200 205 Ser Val Thr Glu Gln Asp Ser Lys Asp Ser
Thr Tyr Ser Leu Ser Ser 210 215 220 Thr Leu Thr Leu Ser Lys Ala Asp
Tyr Glu Lys His Lys Val Tyr Ala 225 230 235 240 Cys Glu Val Thr His
Gln Gly Leu Ser Ser Pro Val Thr Lys Ser Phe 245 250 255 Asn Arg Gly
Glu Cys 260 320786DNAArtificial SequenceSynthetic polynucleotide
320ggccagtctg gccagccgtg ttctgagtgg cagtcgatgg tgcagccgcg
ttgctattat 60gggggcggtt ctggtggcag cggccaaggt ggccaaggtc tgagcggccg
ttccgataat 120catggcagta gcggcggttc tgatattcaa ctgacccaga
gcccttcttc cctgagtgcc 180agcgtgggtg accgtgttac gatcacttgc
tcggccagcc aagatatttc taactacctg 240aattggtacc agcagaagcc
aggaaaggca ccaaaagtcc tgatctactt cacaagttca 300ctgcattccg
gcgtaccgtc gcgctttagc ggttctggca gtggtaccga cttcaccctg
360actatctcga gtctgcaacc tgaggatttt gctacatatt actgtcagca
atattcgacc 420gtgccgtgga cgttcgggca gggcaccaaa gtggagatta
agcgtacggt ggctgcacca 480tctgtcttca tcttcccgcc atctgatgag
cagttgaaat ctggaactgc ctctgttgtg 540tgcctgctga ataacttcta
tcccagagag gccaaagtac agtggaaggt ggataacgcc 600ctccaatcgg
gtaactccca ggagagtgtc acagagcagg acagcaagga cagcacctac
660agcctcagca gcaccctgac gctgagcaaa gcagactacg agaaacacaa
agtctacgcc 720tgcgaagtca cccatcaggg cctgagctcg cccgtcacaa
agagcttcaa caggggagag 780tgttag 786321261PRTArtificial
SequenceSynthetic polypeptide 321Gly Gln Ser Gly Gln Pro Cys Ser
Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly
Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25 30 Gly Leu Ser Gly
Arg Ser Asp Asn His Gly Ser Ser Gly Gly Ser Asp 35 40 45 Ile Gln
Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp 50 55 60
Arg Val Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu 65
70 75 80 Asn Trp Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu
Ile Tyr 85 90 95 Phe Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg
Phe Ser Gly Ser 100 105 110 Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile
Ser Ser Leu Gln Pro Glu 115 120 125 Asp Phe Ala Thr Tyr Tyr Cys Gln
Gln Tyr Ser Thr Val Pro Trp Thr 130 135 140 Phe Gly Gln Gly Thr Lys
Val Glu Ile Lys Arg Thr Val Ala Ala Pro 145 150 155 160 Ser Val Phe
Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr 165 170 175 Ala
Ser Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys 180 185
190 Val Gln Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu
195 200 205 Ser Val Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu
Ser Ser 210 215 220 Thr Leu Thr Leu Ser Lys Ala Asp Tyr Glu Lys His
Lys Val Tyr Ala 225 230 235 240 Cys Glu Val Thr His Gln Gly Leu Ser
Ser Pro Val Thr Lys Ser Phe 245 250 255 Asn Arg Gly Glu Cys 260
322786DNAArtificial SequenceSynthetic polynucleotide 322ggccagtctg
gccagccgtg ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt
ctggtggcag cggccaaggt ggccaaccac tgactggtcg tagcggtggt
120ggaggaagta gcggcggttc tgatattcaa ctgacccaga gcccttcttc
cctgagtgcc 180agcgtgggtg accgtgttac gatcacttgc tcggccagcc
aagatatttc taactacctg 240aattggtacc agcagaagcc aggaaaggca
ccaaaagtcc tgatctactt cacaagttca 300ctgcattccg gcgtaccgtc
gcgctttagc ggttctggca gtggtaccga cttcaccctg 360actatctcga
gtctgcaacc tgaggatttt gctacatatt actgtcagca atattcgacc
420gtgccgtgga cgttcgggca gggcaccaaa gtggagatta agcgtacggt
ggctgcacca 480tctgtcttca tcttcccgcc atctgatgag cagttgaaat
ctggaactgc ctctgttgtg 540tgcctgctga ataacttcta tcccagagag
gccaaagtac agtggaaggt ggataacgcc 600ctccaatcgg gtaactccca
ggagagtgtc acagagcagg acagcaagga cagcacctac 660agcctcagca
gcaccctgac gctgagcaaa gcagactacg agaaacacaa agtctacgcc
720tgcgaagtca cccatcaggg cctgagctcg cccgtcacaa agagcttcaa
caggggagag 780tgttag 786323261PRTArtificial SequenceSynthetic
polypeptide 323Gly Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met
Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser
Gly Gln Gly Gly Gln 20 25 30 Pro Leu Thr Gly Arg Ser Gly Gly Gly
Gly Ser Ser Gly Gly Ser Asp 35 40 45 Ile Gln Leu Thr Gln Ser Pro
Ser Ser Leu Ser Ala Ser Val Gly Asp 50 55 60 Arg Val Thr Ile Thr
Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu 65 70 75 80 Asn Trp Tyr
Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr 85 90 95 Phe
Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly Ser 100 105
110 Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu
115 120 125 Asp Phe Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro
Trp Thr 130 135
140 Phe Gly Gln Gly Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro
145 150 155 160 Ser Val Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys
Ser Gly Thr 165 170 175 Ala Ser Val Val Cys Leu Leu Asn Asn Phe Tyr
Pro Arg Glu Ala Lys 180 185 190 Val Gln Trp Lys Val Asp Asn Ala Leu
Gln Ser Gly Asn Ser Gln Glu 195 200 205 Ser Val Thr Glu Gln Asp Ser
Lys Asp Ser Thr Tyr Ser Leu Ser Ser 210 215 220 Thr Leu Thr Leu Ser
Lys Ala Asp Tyr Glu Lys His Lys Val Tyr Ala 225 230 235 240 Cys Glu
Val Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser Phe 245 250 255
Asn Arg Gly Glu Cys 260 324786DNAArtificial SequenceSynthetic
polynucleotide 324ggccagtctg gccagccgtg ttctgagtgg cagtcgatgg
tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag cggccaaggt ggccaagaaa
ctccatctgt aaagactatg 120ggccgtagta gcggcggttc tgatattcaa
ctgacccaga gcccttcttc cctgagtgcc 180agcgtgggtg accgtgttac
gatcacttgc tcggccagcc aagatatttc taactacctg 240aattggtacc
agcagaagcc aggaaaggca ccaaaagtcc tgatctactt cacaagttca
300ctgcattccg gcgtaccgtc gcgctttagc ggttctggca gtggtaccga
cttcaccctg 360actatctcga gtctgcaacc tgaggatttt gctacatatt
actgtcagca atattcgacc 420gtgccgtgga cgttcgggca gggcaccaaa
gtggagatta agcgtacggt ggctgcacca 480tctgtcttca tcttcccgcc
atctgatgag cagttgaaat ctggaactgc ctctgttgtg 540tgcctgctga
ataacttcta tcccagagag gccaaagtac agtggaaggt ggataacgcc
600ctccaatcgg gtaactccca ggagagtgtc acagagcagg acagcaagga
cagcacctac 660agcctcagca gcaccctgac gctgagcaaa gcagactacg
agaaacacaa agtctacgcc 720tgcgaagtca cccatcaggg cctgagctcg
cccgtcacaa agagcttcaa caggggagag 780tgttag 786325261PRTArtificial
SequenceSynthetic polypeptide 325Gly Gln Ser Gly Gln Pro Cys Ser
Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly
Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25 30 Glu Thr Pro Ser
Val Lys Thr Met Gly Arg Ser Ser Gly Gly Ser Asp 35 40 45 Ile Gln
Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp 50 55 60
Arg Val Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu 65
70 75 80 Asn Trp Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu
Ile Tyr 85 90 95 Phe Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg
Phe Ser Gly Ser 100 105 110 Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile
Ser Ser Leu Gln Pro Glu 115 120 125 Asp Phe Ala Thr Tyr Tyr Cys Gln
Gln Tyr Ser Thr Val Pro Trp Thr 130 135 140 Phe Gly Gln Gly Thr Lys
Val Glu Ile Lys Arg Thr Val Ala Ala Pro 145 150 155 160 Ser Val Phe
Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr 165 170 175 Ala
Ser Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys 180 185
190 Val Gln Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu
195 200 205 Ser Val Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu
Ser Ser 210 215 220 Thr Leu Thr Leu Ser Lys Ala Asp Tyr Glu Lys His
Lys Val Tyr Ala 225 230 235 240 Cys Glu Val Thr His Gln Gly Leu Ser
Ser Pro Val Thr Lys Ser Phe 245 250 255 Asn Arg Gly Glu Cys 260
326786DNAArtificial SequenceSynthetic polynucleotide 326ggccagtctg
gccagccgtg ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt
ctggtggcag cggccaaggt ggccaaggtt tcccacatat gaaaactttc
120cagcatagta gcggcggttc tgatattcaa ctgacccaga gcccttcttc
cctgagtgcc 180agcgtgggtg accgtgttac gatcacttgc tcggccagcc
aagatatttc taactacctg 240aattggtacc agcagaagcc aggaaaggca
ccaaaagtcc tgatctactt cacaagttca 300ctgcattccg gcgtaccgtc
gcgctttagc ggttctggca gtggtaccga cttcaccctg 360actatctcga
gtctgcaacc tgaggatttt gctacatatt actgtcagca atattcgacc
420gtgccgtgga cgttcgggca gggcaccaaa gtggagatta agcgtacggt
ggctgcacca 480tctgtcttca tcttcccgcc atctgatgag cagttgaaat
ctggaactgc ctctgttgtg 540tgcctgctga ataacttcta tcccagagag
gccaaagtac agtggaaggt ggataacgcc 600ctccaatcgg gtaactccca
ggagagtgtc acagagcagg acagcaagga cagcacctac 660agcctcagca
gcaccctgac gctgagcaaa gcagactacg agaaacacaa agtctacgcc
720tgcgaagtca cccatcaggg cctgagctcg cccgtcacaa agagcttcaa
caggggagag 780tgttag 786327261PRTArtificial SequenceSynthetic
polypeptide 327Gly Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met
Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser
Gly Gln Gly Gly Gln 20 25 30 Gly Phe Pro His Met Lys Thr Phe Gln
His Ser Ser Gly Gly Ser Asp 35 40 45 Ile Gln Leu Thr Gln Ser Pro
Ser Ser Leu Ser Ala Ser Val Gly Asp 50 55 60 Arg Val Thr Ile Thr
Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu 65 70 75 80 Asn Trp Tyr
Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr 85 90 95 Phe
Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly Ser 100 105
110 Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu
115 120 125 Asp Phe Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro
Trp Thr 130 135 140 Phe Gly Gln Gly Thr Lys Val Glu Ile Lys Arg Thr
Val Ala Ala Pro 145 150 155 160 Ser Val Phe Ile Phe Pro Pro Ser Asp
Glu Gln Leu Lys Ser Gly Thr 165 170 175 Ala Ser Val Val Cys Leu Leu
Asn Asn Phe Tyr Pro Arg Glu Ala Lys 180 185 190 Val Gln Trp Lys Val
Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu 195 200 205 Ser Val Thr
Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser Ser 210 215 220 Thr
Leu Thr Leu Ser Lys Ala Asp Tyr Glu Lys His Lys Val Tyr Ala 225 230
235 240 Cys Glu Val Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser
Phe 245 250 255 Asn Arg Gly Glu Cys 260 328780DNAArtificial
SequenceSynthetic polynucleotide 328ggccagtctg gccagccgtg
ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag
cggccaaggt ggccaagcag ctaatctggg cagcggagga 120agtagcggcg
gttctgatat tcaactgacc cagagccctt cttccctgag tgccagcgtg
180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata tttctaacta
cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa gtcctgatct
acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt tagcggttct
ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc aacctgagga
ttttgctaca tattactgtc agcaatattc gaccgtgccg 420tggacgttcg
ggcagggcac caaagtggag attaagcgta cggtggctgc accatctgtc
480ttcatcttcc cgccatctga tgagcagttg aaatctggaa ctgcctctgt
tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa gtacagtgga
aggtggataa cgccctccaa 600tcgggtaact cccaggagag tgtcacagag
caggacagca aggacagcac ctacagcctc 660agcagcaccc tgacgctgag
caaagcagac tacgagaaac acaaagtcta cgcctgcgaa 720gtcacccatc
agggcctgag ctcgcccgtc acaaagagct tcaacagggg agagtgttag
780329259PRTArtificial SequenceSynthetic polypeptide 329Gly Gln Ser
Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg
Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25
30 Ala Ala Asn Leu Gly Ser Gly Gly Ser Ser Gly Gly Ser Asp Ile Gln
35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp
Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn
Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys
Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro
Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu
Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr
Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly
Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro Ser Val 145 150 155
160 Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser
165 170 175 Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys
Val Gln 180 185 190 Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser
Gln Glu Ser Val 195 200 205 Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr
Ser Leu Ser Ser Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu
Lys His Lys Val Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly
Leu Ser Ser Pro Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
330780DNAArtificial SequenceSynthetic polynucleotide 330ggccagtctg
gccagccgtg ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt
ctggtggcag cggccaaggt ggccaaccga ctaatctggg cagcggagga
120agtagcggcg gttctgatat tcaactgacc cagagccctt cttccctgag
tgccagcgtg 180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata
tttctaacta cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa
gtcctgatct acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt
tagcggttct ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc
aacctgagga ttttgctaca tattactgtc agcaatattc gaccgtgccg
420tggacgttcg ggcagggcac caaagtggag attaagcgta cggtggctgc
accatctgtc 480ttcatcttcc cgccatctga tgagcagttg aaatctggaa
ctgcctctgt tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa
gtacagtgga aggtggataa cgccctccaa 600tcgggtaact cccaggagag
tgtcacagag caggacagca aggacagcac ctacagcctc 660agcagcaccc
tgacgctgag caaagcagac tacgagaaac acaaagtcta cgcctgcgaa
720gtcacccatc agggcctgag ctcgcccgtc acaaagagct tcaacagggg
agagtgttag 780331259PRTArtificial SequenceSynthetic polypeptide
331Gly Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro
1 5 10 15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly
Gly Gln 20 25 30 Pro Thr Asn Leu Gly Ser Gly Gly Ser Ser Gly Gly
Ser Asp Ile Gln 35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala
Ser Val Gly Asp Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln
Asp Ile Ser Asn Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly
Lys Ala Pro Lys Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His
Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr
Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125
Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130
135 140 Gln Gly Thr Lys Val Glu Ile Lys Arg Thr Val Ala Ala Pro Ser
Val 145 150 155 160 Phe Ile Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser
Gly Thr Ala Ser 165 170 175 Val Val Cys Leu Leu Asn Asn Phe Tyr Pro
Arg Glu Ala Lys Val Gln 180 185 190 Trp Lys Val Asp Asn Ala Leu Gln
Ser Gly Asn Ser Gln Glu Ser Val 195 200 205 Thr Glu Gln Asp Ser Lys
Asp Ser Thr Tyr Ser Leu Ser Ser Thr Leu 210 215 220 Thr Leu Ser Lys
Ala Asp Tyr Glu Lys His Lys Val Tyr Ala Cys Glu 225 230 235 240 Val
Thr His Gln Gly Leu Ser Ser Pro Val Thr Lys Ser Phe Asn Arg 245 250
255 Gly Glu Cys 332780DNAArtificial SequenceSynthetic
polynucleotide 332ggccagtctg gccagccgtg ttctgagtgg cagtcgatgg
tgcagccgcg ttgctattat 60gggggcggtt ctggtggcag cggccaaggt ggccaaccga
ctaatggtgg cagcggagga 120agtagcggcg gttctgatat tcaactgacc
cagagccctt cttccctgag tgccagcgtg 180ggtgaccgtg ttacgatcac
ttgctcggcc agccaagata tttctaacta cctgaattgg 240taccagcaga
agccaggaaa ggcaccaaaa gtcctgatct acttcacaag ttcactgcat
300tccggcgtac cgtcgcgctt tagcggttct ggcagtggta ccgacttcac
cctgactatc 360tcgagtctgc aacctgagga ttttgctaca tattactgtc
agcaatattc gaccgtgccg 420tggacgttcg ggcagggcac caaagtggag
attaagcgta cggtggctgc accatctgtc 480ttcatcttcc cgccatctga
tgagcagttg aaatctggaa ctgcctctgt tgtgtgcctg 540ctgaataact
tctatcccag agaggccaaa gtacagtgga aggtggataa cgccctccaa
600tcgggtaact cccaggagag tgtcacagag caggacagca aggacagcac
ctacagcctc 660agcagcaccc tgacgctgag caaagcagac tacgagaaac
acaaagtcta cgcctgcgaa 720gtcacccatc agggcctgag ctcgcccgtc
acaaagagct tcaacagggg agagtgttag 780333259PRTArtificial
SequenceSynthetic polypeptide 333Gly Gln Ser Gly Gln Pro Cys Ser
Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly
Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25 30 Pro Thr Asn Gly
Gly Ser Gly Gly Ser Ser Gly Gly Ser Asp Ile Gln 35 40 45 Leu Thr
Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp Arg Val 50 55 60
Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn Trp 65
70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr
Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser
Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser
Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr Cys Gln Gln Tyr
Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly Thr Lys Val Glu
Ile Lys Arg Thr Val Ala Ala Pro Ser Val 145 150 155 160 Phe Ile Phe
Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser 165 170 175 Val
Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val Gln 180 185
190 Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu Ser Val
195 200 205 Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser Ser
Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu Lys His Lys Val
Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly Leu Ser Ser Pro
Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
3344PRTArtificial SequenceSynthetic peptide 334Asp Glu Val Asp 1
335780DNAArtificial SequenceSynthetic polynucleotide 335ggccagtctg
gccagccgtg ttctgagtgg cagtcgatgg tgcagccgcg ttgctattat 60gggggcggtt
ctggtggcag cggccaaggt ggccaagacg aagtcgatgg cagcggagga
120agtagcggcg gttctgatat tcaactgacc cagagccctt cttccctgag
tgccagcgtg 180ggtgaccgtg ttacgatcac ttgctcggcc agccaagata
tttctaacta cctgaattgg 240taccagcaga agccaggaaa ggcaccaaaa
gtcctgatct acttcacaag ttcactgcat 300tccggcgtac cgtcgcgctt
tagcggttct ggcagtggta ccgacttcac cctgactatc 360tcgagtctgc
aacctgagga ttttgctaca tattactgtc agcaatattc gaccgtgccg
420tggacgttcg ggcagggcac caaagtggag attaagcgta cggtggctgc
accatctgtc 480ttcatcttcc cgccatctga tgagcagttg aaatctggaa
ctgcctctgt tgtgtgcctg 540ctgaataact tctatcccag agaggccaaa
gtacagtgga aggtggataa cgccctccaa 600tcgggtaact cccaggagag
tgtcacagag caggacagca aggacagcac ctacagcctc 660agcagcaccc
tgacgctgag caaagcagac tacgagaaac acaaagtcta cgcctgcgaa
720gtcacccatc agggcctgag ctcgcccgtc acaaagagct tcaacagggg
agagtgttag 780336259PRTArtificial SequenceSynthetic polypeptide
336Gly Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro
1 5 10 15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly
Gly Gln 20 25 30 Asp Glu Val Asp Gly Ser Gly Gly Ser Ser Gly Gly
Ser Asp Ile Gln 35 40 45
Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val Gly Asp Arg Val 50
55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn
Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile
Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe
Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe Thr Leu Thr Ile Ser
Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr Tyr Tyr Cys Gln Gln
Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140 Gln Gly Thr Lys Val
Glu Ile Lys Arg Thr Val Ala Ala Pro Ser Val 145 150 155 160 Phe Ile
Phe Pro Pro Ser Asp Glu Gln Leu Lys Ser Gly Thr Ala Ser 165 170 175
Val Val Cys Leu Leu Asn Asn Phe Tyr Pro Arg Glu Ala Lys Val Gln 180
185 190 Trp Lys Val Asp Asn Ala Leu Gln Ser Gly Asn Ser Gln Glu Ser
Val 195 200 205 Thr Glu Gln Asp Ser Lys Asp Ser Thr Tyr Ser Leu Ser
Ser Thr Leu 210 215 220 Thr Leu Ser Lys Ala Asp Tyr Glu Lys His Lys
Val Tyr Ala Cys Glu 225 230 235 240 Val Thr His Gln Gly Leu Ser Ser
Pro Val Thr Lys Ser Phe Asn Arg 245 250 255 Gly Glu Cys
33733DNAArtificial SequenceSynthetic primer 337aggttgcaga
ctcgagatag tcagggtgaa gtc 3333847DNAArtificial SequenceSynthetic
primer 338tcctccgctg cccagattag ctgcttggcc accttggccg ctgccac
4733951DNAArtificial SequenceSynthetic primer 339gcagctaatc
tgggcagcgg aggaagtagc ggcggttctg atattcaact g 5134047DNAArtificial
SequenceSynthetic primer 340tcctccgctg cccagattag tcggttggcc
accttggccg ctgccac 4734151DNAArtificial SequenceSynthetic primer
341ccgactaatc tgggcagcgg aggaagtagc ggcggttctg atattcaact g
5134247DNAArtificial SequenceSynthetic primer 342tcctccgctg
ccaccattag tcggttggcc accttggccg ctgccac 4734351DNAArtificial
SequenceSynthetic primer 343ccgactaatg gtggcagcgg aggaagtagc
ggcggttctg atattcaact g 5134451DNAArtificial SequenceSynthetic
primer 344gacgaagtcg atggcagcgg aggaagtagc ggcggttctg atattcaact g
5134547DNAArtificial SequenceSynthetic primer 345tcctccgctg
ccatcgactt cgtcttggcc accttggccg ctgccac 47346493PRTArtificial
SequenceSynthetic polypeptide 346Asp Ile Gln Leu Thr Gln Ser Pro
Ser Ser Leu Ser Ala Ser Val Gly 1 5 10 15 Asp Arg Val Thr Ile Thr
Cys Ser Ala Ser Gln Asp Ile Ser Asn Tyr 20 25 30 Leu Asn Trp Tyr
Gln Gln Lys Pro Gly Lys Ala Pro Lys Val Leu Ile 35 40 45 Tyr Phe
Thr Ser Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly 50 55 60
Ser Gly Ser Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro 65
70 75 80 Glu Asp Phe Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val
Pro Trp 85 90 95 Thr Phe Gly Gln Gly Thr Lys Val Glu Ile Lys Gly
Gly Gly Ser Gly 100 105 110 Gly Gly Ser Gly Gly Gly Ser Gly Gly Gly
Gly Ser Gly Gly Gly Gly 115 120 125 Ser Gly Gly Gly Gly Ser Gly Glu
Val Gln Leu Val Glu Ser Gly Gly 130 135 140 Gly Leu Val Gln Pro Gly
Gly Ser Leu Arg Leu Ser Cys Ala Ala Ser 145 150 155 160 Gly Tyr Asp
Phe Thr His Tyr Gly Met Asn Trp Val Arg Gln Ala Pro 165 170 175 Gly
Lys Gly Leu Glu Trp Val Gly Trp Ile Asn Thr Tyr Thr Gly Glu 180 185
190 Pro Thr Tyr Ala Ala Asp Phe Lys Arg Arg Phe Thr Phe Ser Leu Asp
195 200 205 Thr Ser Lys Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg
Ala Glu 210 215 220 Asp Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr
Tyr Tyr Gly Thr 225 230 235 240 Ser His Trp Tyr Phe Asp Val Trp Gly
Gln Gly Thr Leu Val Thr Val 245 250 255 Ser Gly Gly Ser Gly Ala Met
Val Arg Ser Asp Lys Thr His Thr Cys 260 265 270 Pro Pro Cys Pro Ala
Pro Glu Leu Leu Gly Gly Pro Ser Val Phe Leu 275 280 285 Phe Pro Pro
Lys Pro Lys Asp Thr Leu Met Ile Ser Arg Thr Pro Glu 290 295 300 Val
Thr Cys Val Val Val Asp Val Ser His Glu Asp Pro Glu Val Lys 305 310
315 320 Phe Asn Trp Tyr Val Asp Gly Val Glu Val His Asn Ala Lys Thr
Lys 325 330 335 Pro Arg Glu Glu Gln Tyr Asn Ser Thr Tyr Arg Val Val
Ser Val Leu 340 345 350 Thr Val Leu His Gln Asp Trp Leu Asn Gly Lys
Glu Tyr Lys Cys Lys 355 360 365 Val Ser Asn Lys Ala Leu Pro Ala Pro
Ile Glu Lys Thr Ile Ser Lys 370 375 380 Ala Lys Gly Gln Pro Arg Glu
Pro Gln Val Tyr Thr Leu Pro Pro Ser 385 390 395 400 Arg Glu Glu Met
Thr Lys Asn Gln Val Ser Leu Thr Cys Leu Val Lys 405 410 415 Gly Phe
Tyr Pro Ser Asp Ile Ala Val Glu Trp Glu Ser Asn Gly Gln 420 425 430
Pro Glu Asn Asn Tyr Lys Thr Thr Pro Pro Val Leu Asp Ser Asp Gly 435
440 445 Ser Phe Phe Leu Tyr Ser Lys Leu Thr Val Asp Lys Ser Arg Trp
Gln 450 455 460 Gln Gly Asn Val Phe Ser Cys Ser Val Met His Glu Gly
Leu His Asn 465 470 475 480 His Tyr Thr Gln Lys Ser Leu Ser Leu Ser
Pro Gly Lys 485 490 347538PRTArtificial SequenceSynthetic
polypeptide 347Gly Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met
Val Gln Pro 1 5 10 15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser
Gly Gln Gly Gly Gln 20 25 30 Val His Met Pro Leu Gly Phe Leu Gly
Pro Gly Gly Ser Asp Ile Gln 35 40 45 Leu Thr Gln Ser Pro Ser Ser
Leu Ser Ala Ser Val Gly Asp Arg Val 50 55 60 Thr Ile Thr Cys Ser
Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln
Lys Pro Gly Lys Ala Pro Lys Val Leu Ile Tyr Phe Thr 85 90 95 Ser
Ser Leu His Ser Gly Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 100 105
110 Gly Thr Asp Phe Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe
115 120 125 Ala Thr Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr
Phe Gly 130 135 140 Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Ser
Gly Gly Gly Ser 145 150 155 160 Gly Gly Gly Ser Gly Gly Gly Gly Ser
Gly Gly Gly Gly Ser Gly Gly 165 170 175 Gly Gly Ser Gly Glu Val Gln
Leu Val Glu Ser Gly Gly Gly Leu Val 180 185 190 Gln Pro Gly Gly Ser
Leu Arg Leu Ser Cys Ala Ala Ser Gly Tyr Asp 195 200 205 Phe Thr His
Tyr Gly Met Asn Trp Val Arg Gln Ala Pro Gly Lys Gly 210 215 220 Leu
Glu Trp Val Gly Trp Ile Asn Thr Tyr Thr Gly Glu Pro Thr Tyr 225 230
235 240 Ala Ala Asp Phe Lys Arg Arg Phe Thr Phe Ser Leu Asp Thr Ser
Lys 245 250 255 Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg Ala Glu
Asp Thr Ala 260 265 270 Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr
Gly Thr Ser His Trp 275 280 285 Tyr Phe Asp Val Trp Gly Gln Gly Thr
Leu Val Thr Val Ser Gly Gly 290 295 300 Ser Gly Ala Met Val Arg Ser
Asp Lys Thr His Thr Cys Pro Pro Cys 305 310 315 320 Pro Ala Pro Glu
Leu Leu Gly Gly Pro Ser Val Phe Leu Phe Pro Pro 325 330 335 Lys Pro
Lys Asp Thr Leu Met Ile Ser Arg Thr Pro Glu Val Thr Cys 340 345 350
Val Val Val Asp Val Ser His Glu Asp Pro Glu Val Lys Phe Asn Trp 355
360 365 Tyr Val Asp Gly Val Glu Val His Asn Ala Lys Thr Lys Pro Arg
Glu 370 375 380 Glu Gln Tyr Asn Ser Thr Tyr Arg Val Val Ser Val Leu
Thr Val Leu 385 390 395 400 His Gln Asp Trp Leu Asn Gly Lys Glu Tyr
Lys Cys Lys Val Ser Asn 405 410 415 Lys Ala Leu Pro Ala Pro Ile Glu
Lys Thr Ile Ser Lys Ala Lys Gly 420 425 430 Gln Pro Arg Glu Pro Gln
Val Tyr Thr Leu Pro Pro Ser Arg Glu Glu 435 440 445 Met Thr Lys Asn
Gln Val Ser Leu Thr Cys Leu Val Lys Gly Phe Tyr 450 455 460 Pro Ser
Asp Ile Ala Val Glu Trp Glu Ser Asn Gly Gln Pro Glu Asn 465 470 475
480 Asn Tyr Lys Thr Thr Pro Pro Val Leu Asp Ser Asp Gly Ser Phe Phe
485 490 495 Leu Tyr Ser Lys Leu Thr Val Asp Lys Ser Arg Trp Gln Gln
Gly Asn 500 505 510 Val Phe Ser Cys Ser Val Met His Glu Gly Leu His
Asn His Tyr Thr 515 520 525 Gln Lys Ser Leu Ser Leu Ser Pro Gly Lys
530 535 348526PRTArtificial SequenceSynthetic polypeptide 348Gly
Gln Ser Gly Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10
15 Arg Cys Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln
20 25 30 Gln Gly Pro Met Phe Lys Ser Leu Trp Asp Gly Gly Ser Asp
Ile Gln 35 40 45 Leu Thr Gln Ser Pro Ser Ser Leu Ser Ala Ser Val
Gly Asp Arg Val 50 55 60 Thr Ile Thr Cys Ser Ala Ser Gln Asp Ile
Ser Asn Tyr Leu Asn Trp 65 70 75 80 Tyr Gln Gln Lys Pro Gly Lys Ala
Pro Lys Val Leu Ile Tyr Phe Thr 85 90 95 Ser Ser Leu His Ser Gly
Val Pro Ser Arg Phe Ser Gly Ser Gly Ser 100 105 110 Gly Thr Asp Phe
Thr Leu Thr Ile Ser Ser Leu Gln Pro Glu Asp Phe 115 120 125 Ala Thr
Tyr Tyr Cys Gln Gln Tyr Ser Thr Val Pro Trp Thr Phe Gly 130 135 140
Gln Gly Thr Lys Val Glu Ile Lys Gly Gly Gly Gly Ser Gly Gly Gly 145
150 155 160 Gly Ser Gly Gly Gly Gly Ser Gly Glu Val Gln Leu Val Glu
Ser Gly 165 170 175 Gly Gly Leu Val Gln Pro Gly Gly Ser Leu Arg Leu
Ser Cys Ala Ala 180 185 190 Ser Gly Tyr Asp Phe Thr His Tyr Gly Met
Asn Trp Val Arg Gln Ala 195 200 205 Pro Gly Lys Gly Leu Glu Trp Val
Gly Trp Ile Asn Thr Tyr Thr Gly 210 215 220 Glu Pro Thr Tyr Ala Ala
Asp Phe Lys Arg Arg Phe Thr Phe Ser Leu 225 230 235 240 Asp Thr Ser
Lys Ser Thr Ala Tyr Leu Gln Met Asn Ser Leu Arg Ala 245 250 255 Glu
Asp Thr Ala Val Tyr Tyr Cys Ala Lys Tyr Pro Tyr Tyr Tyr Gly 260 265
270 Thr Ser His Trp Tyr Phe Asp Val Trp Gly Gln Gly Thr Leu Val Thr
275 280 285 Val Ser Gly Gly Ser Gly Ala Met Val Arg Ser Asp Lys Thr
His Thr 290 295 300 Cys Pro Pro Cys Pro Ala Pro Glu Leu Leu Gly Gly
Pro Ser Val Phe 305 310 315 320 Leu Phe Pro Pro Lys Pro Lys Asp Thr
Leu Met Ile Ser Arg Thr Pro 325 330 335 Glu Val Thr Cys Val Val Val
Asp Val Ser His Glu Asp Pro Glu Val 340 345 350 Lys Phe Asn Trp Tyr
Val Asp Gly Val Glu Val His Asn Ala Lys Thr 355 360 365 Lys Pro Arg
Glu Glu Gln Tyr Asn Ser Thr Tyr Arg Val Val Ser Val 370 375 380 Leu
Thr Val Leu His Gln Asp Trp Leu Asn Gly Lys Glu Tyr Lys Cys 385 390
395 400 Lys Val Ser Asn Lys Ala Leu Pro Ala Pro Ile Glu Lys Thr Ile
Ser 405 410 415 Lys Ala Lys Gly Gln Pro Arg Glu Pro Gln Val Tyr Thr
Leu Pro Pro 420 425 430 Ser Arg Glu Glu Met Thr Lys Asn Gln Val Ser
Leu Thr Cys Leu Val 435 440 445 Lys Gly Phe Tyr Pro Ser Asp Ile Ala
Val Glu Trp Glu Ser Asn Gly 450 455 460 Gln Pro Glu Asn Asn Tyr Lys
Thr Thr Pro Pro Val Leu Asp Ser Asp 465 470 475 480 Gly Ser Phe Phe
Leu Tyr Ser Lys Leu Thr Val Asp Lys Ser Arg Trp 485 490 495 Gln Gln
Gly Asn Val Phe Ser Cys Ser Val Met His Glu Gly Leu His 500 505 510
Asn His Tyr Thr Gln Lys Ser Leu Ser Leu Ser Pro Gly Lys 515 520 525
349533PRTArtificial SequenceSynthetic polypeptide 349Pro Cys Ser
Glu Trp Gln Ser Met Val Gln Pro Arg Cys Tyr Tyr Gly 1 5 10 15 Gly
Ser Gly Gly Gly Ser Gly Gln Ser Gly Gln Gly Gly Ser Gly Gly 20 25
30 Ser Gly Gln Gly Gly Gln Gly Ser Asp Ile Gln Leu Thr Gln Ser Pro
35 40 45 Ser Ser Leu Ser Ala Ser Val Gly Asp Arg Val Thr Ile Thr
Cys Ser 50 55 60 Ala Ser Gln Asp Ile Ser Asn Tyr Leu Asn Trp Tyr
Gln Gln Lys Pro 65 70 75 80 Gly Lys Ala Pro Lys Val Leu Ile Tyr Phe
Thr Ser Ser Leu His Ser 85 90 95 Gly Val Pro Ser Arg Phe Ser Gly
Ser Gly Ser Gly Thr Asp Phe Thr 100 105 110 Leu Thr Ile Ser Ser Leu
Gln Pro Glu Asp Phe Ala Thr Tyr Tyr Cys 115 120 125 Gln Gln Tyr Ser
Thr Val Pro Trp Thr Phe Gly Gln Gly Thr Lys Val 130 135 140 Glu Ile
Lys Gly Gly Gly Ser Gly Gly Gly Ser Gly Gly Gly Ser Gly 145 150 155
160 Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Glu
165 170 175 Val Gln Leu Val Glu Ser Gly Gly Gly Leu Val Gln Pro Gly
Gly Ser 180 185 190 Leu Arg Leu Ser Cys Ala Ala Ser Gly Tyr Asp Phe
Thr His Tyr Gly 195 200 205 Met Asn Trp Val Arg Gln Ala Pro Gly Lys
Gly Leu Glu Trp Val Gly 210 215 220 Trp Ile Asn Thr Tyr Thr Gly Glu
Pro Thr Tyr Ala Ala Asp Phe Lys 225 230 235 240 Arg Arg Phe Thr Phe
Ser Leu Asp Thr Ser Lys Ser Thr Ala Tyr Leu 245 250 255 Gln Met Asn
Ser Leu Arg Ala Glu Asp Thr Ala Val Tyr Tyr Cys Ala 260 265 270 Lys
Tyr Pro Tyr Tyr Tyr Gly Thr Ser His Trp Tyr Phe Asp Val Trp 275 280
285 Gly Gln Gly Thr Leu Val Thr Val Ser Gly Gly Ser Gly Ala Met Val
290 295 300 Arg Ser Asp Lys Thr His Thr Cys Pro Pro Cys Pro Ala Pro
Glu Leu 305 310 315 320 Leu Gly Gly Pro Ser Val Phe Leu Phe Pro Pro
Lys Pro Lys Asp Thr 325 330 335 Leu Met Ile Ser Arg Thr Pro Glu Val
Thr Cys Val Val Val Asp Val 340 345 350 Ser His Glu Asp Pro Glu Val
Lys Phe Asn Trp Tyr Val Asp Gly Val 355 360 365 Glu Val His Asn Ala
Lys Thr Lys Pro Arg Glu Glu Gln
Tyr Asn Ser 370 375 380 Thr Tyr Arg Val Val Ser Val Leu Thr Val Leu
His Gln Asp Trp Leu 385 390 395 400 Asn Gly Lys Glu Tyr Lys Cys Lys
Val Ser Asn Lys Ala Leu Pro Ala 405 410 415 Pro Ile Glu Lys Thr Ile
Ser Lys Ala Lys Gly Gln Pro Arg Glu Pro 420 425 430 Gln Val Tyr Thr
Leu Pro Pro Ser Arg Glu Glu Met Thr Lys Asn Gln 435 440 445 Val Ser
Leu Thr Cys Leu Val Lys Gly Phe Tyr Pro Ser Asp Ile Ala 450 455 460
Val Glu Trp Glu Ser Asn Gly Gln Pro Glu Asn Asn Tyr Lys Thr Thr 465
470 475 480 Pro Pro Val Leu Asp Ser Asp Gly Ser Phe Phe Leu Tyr Ser
Lys Leu 485 490 495 Thr Val Asp Lys Ser Arg Trp Gln Gln Gly Asn Val
Phe Ser Cys Ser 500 505 510 Val Met His Glu Gly Leu His Asn His Tyr
Thr Gln Lys Ser Leu Ser 515 520 525 Leu Ser Pro Gly Lys 530
35045PRTArtificial SequenceSynthetic polypeptide 350Gly Gln Ser Gly
Gln Pro Cys Ser Glu Trp Gln Ser Met Val Gln Pro 1 5 10 15 Arg Cys
Tyr Tyr Gly Gly Gly Ser Gly Gly Ser Gly Gln Gly Gly Gln 20 25 30
Val His Met Pro Leu Gly Phe Leu Gly Pro Gly Gly Ser 35 40 45
3518PRTArtificial SequenceSynthetic peptide 351Gly Gly Gly Ser Gly
Gly Gly Ser 1 5 35215PRTArtificial SequenceSynthetic peptide 352Ile
Gly Arg Cys Pro Ile Cys Phe Met Arg Pro Ala His Glu Glu 1 5 10 15
35315PRTArtificial SequenceSynthetic peptide 353Leu Gly Arg Cys Pro
Ile Cys Gly Pro Gln Asn Asn Ser Arg Ala 1 5 10 15
35415PRTArtificial SequenceSynthetic peptide 354Cys Pro Met Ser Ser
Val Arg Leu Cys Tyr Glu Phe Asn Gln Glu 1 5 10 15
35515PRTArtificial SequenceSynthetic peptide 355Thr Leu Thr Pro Glu
His Thr Arg Gln Trp Tyr Leu Glu Lys Tyr 1 5 10 15
35615PRTArtificial SequenceSynthetic peptide 356Cys Thr Pro Thr Leu
Thr Arg Asp Gly Trp Leu His Cys Pro Ser 1 5 10 15
35715PRTArtificial SequenceSynthetic peptide 357Trp Cys Arg Pro Thr
Gln Ser Tyr Glu His Ile Cys Pro Lys Glu 1 5 10 15
35815PRTArtificial SequenceSynthetic peptide 358Leu Ile Cys Asp Leu
Tyr Pro Thr Val Asn Ala Thr Arg Cys Lys 1 5 10 15
35915PRTArtificial SequenceSynthetic peptide 359His Val His Phe Asn
Phe Lys Glu Trp Cys Arg Asn Ile Arg Cys 1 5 10 15
36015PRTArtificial SequenceSynthetic peptide 360Pro Ile Tyr Asp Tyr
Ala Phe Tyr Gln Ser Asp Ala Tyr Arg Ser 1 5 10 15 3614PRTArtificial
SequenceSynthetic peptide 361Ala Ala Asn Leu 1 3624PRTArtificial
SequenceSynthetic peptide 362Pro Thr Asn Leu 1 3634PRTArtificial
SequenceSynthetic peptide 363Ala Ala Asn Leu 1 3643PRTArtificial
SequenceSynthetic peptide 364Pro Thr Asn1 36510PRTArtificial
SequenceSynthetic peptide 365Pro Ser Pro Pro Val Lys Met Met Pro
Glu 1 5 1036610PRTArtificial SequenceSynthetic consensus peptide
366Xaa Xaa Pro Xaa Val Lys Xaa Xaa Xaa Xaa1 5 1036710PRTArtificial
SequenceSynthetic consensus peptide 367Xaa Xaa Pro Xaa Val Lys Xaa
Val Xaa Xaa1 5 1036810PRTArtificial SequenceSynthetic consensus
peptide 368Xaa Xaa Pro Xaa Val Lys Xaa Leu Xaa Xaa1 5
1036910PRTArtificial SequenceSynthetic consensus peptide 369Xaa Xaa
Pro Xaa Val Lys Xaa Met Xaa Xaa1 5 1037010PRTArtificial
SequenceSynthetic consensus peptide 370Xaa Xaa Pro Xaa Met Lys Xaa
Xaa Xaa Xaa1 5 1037110PRTArtificial SequenceSynthetic consensus
peptide 371Xaa Xaa Pro Xaa Met Lys Leu Phe Xaa Gly1 5
1037210PRTArtificial SequenceSynthetic consensus peptide 372Xaa Xaa
Pro Xaa Met Lys Ser Xaa Xaa Xaa1 5 1037310PRTArtificial
SequenceSynthetic consensus peptide 373Xaa Xaa Pro Xaa Met Lys Thr
Xaa Xaa Xaa1 5 1037410PRTArtificial SequenceSynthetic consensus
peptide 374Xaa Xaa Pro Ser Phe Lys Leu Val Xaa Xaa1 5
1037510PRTArtificial SequenceSynthetic consensus peptide 375Xaa Xaa
Pro Xaa Leu Lys Xaa Xaa Xaa Xaa1 5 1037610PRTArtificial
SequenceSynthetic consensus peptide 376Xaa Xaa Pro Xaa Xaa Arg Xaa
Xaa Xaa Xaa1 5 10
* * * * *