U.S. patent application number 14/828111 was filed with the patent office on 2015-12-31 for flagellin related polypeptides and uses thereof.
The applicant listed for this patent is Cleveland Clinic Foundation. Invention is credited to Joseph A. DiDonato, Andrei V. Gudkov, Vadim Krivokrysenko.
Application Number | 20150376241 14/828111 |
Document ID | / |
Family ID | 36602096 |
Filed Date | 2015-12-31 |
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United States Patent
Application |
20150376241 |
Kind Code |
A1 |
Gudkov; Andrei V. ; et
al. |
December 31, 2015 |
FLAGELLIN RELATED POLYPEPTIDES AND USES THEREOF
Abstract
The use of flagellin and flagellin related polypeptides for the
protection of mammals from the effects of apoptosis is
described.
Inventors: |
Gudkov; Andrei V.; (East
Aurora, NY) ; DiDonato; Joseph A.; (Westlake, OH)
; Krivokrysenko; Vadim; (Orchard Park, NY) |
|
Applicant: |
Name |
City |
State |
Country |
Type |
Cleveland Clinic Foundation |
Cleveland |
OH |
US |
|
|
Family ID: |
36602096 |
Appl. No.: |
14/828111 |
Filed: |
August 17, 2015 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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14559669 |
Dec 3, 2014 |
9139623 |
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14828111 |
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13110704 |
May 18, 2011 |
8932609 |
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14559669 |
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11722682 |
May 2, 2008 |
8007812 |
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PCT/US2005/046485 |
Dec 22, 2005 |
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13110704 |
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60639826 |
Dec 22, 2004 |
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Current U.S.
Class: |
514/21.2 ;
530/350 |
Current CPC
Class: |
A61K 45/06 20130101;
A61P 43/00 20180101; A61P 17/02 20180101; A61K 38/164 20130101;
A61P 31/12 20180101; A61P 39/00 20180101; Y02A 50/30 20180101; A61P
35/00 20180101; A61K 39/0275 20130101; A61P 31/04 20180101; Y02A
50/481 20180101; A61P 39/02 20180101; C07K 14/255 20130101; Y10S
530/825 20130101 |
International
Class: |
C07K 14/255 20060101
C07K014/255; A61K 45/06 20060101 A61K045/06; A61K 38/16 20060101
A61K038/16 |
Claims
1.-13. (canceled)
14. A composition comprising a Salmonella flagellin polypeptide,
wherein the polypeptide comprises an amino acid sequence selected
from SEQ ID NOs: 12, 30, 32, 34, 36, 38, 40, 42, and 44.
15. The composition of claim 14, wherein the composition further
comprises a radioprotectant.
16. The composition of claim 15, wherein the radioprotectant is
selected from an antioxidant, amifostine, vitamin E, a cytokine, a
stem cell factor, a growth factor, keratinocyte growth factor, a
steroid, 5-androstenediol, and ammonium
trichloro(dioxoethylene-O,O')tellurate.
17. The composition of claim 14, wherein the polypeptide is capable
of inducing NF.kappa.B activity.
18. A pharmaceutical composition comprising a Salmonella flagellin
polypeptide, wherein the polypeptide comprises an amino acid
sequence selected from SEQ ID NOs: 12, 30, 32, 34, 36, 38, 40, 42,
and 44 and a pharmaceutically acceptable adjuvant diluent, or
carrier.
19. The pharmaceutical composition of claim 18, wherein the
composition further comprises a radioprotectant.
20. The pharmaceutical composition of claim 19, wherein the
radioprotectant is selected from an antioxidant, amifostine,
vitamin E, a cytokine, a stem cell factor, a growth factor,
keratinocyte growth factor, a steroid, 5-androstenediol, and
ammonium trichloro(dioxoethylene-O,O')tellurate.
21. The pharmaceutical composition of claim 18, wherein the
polypeptide is capable of inducing NF.kappa.B activity.
Description
CROSS REFERENCE TO RELATED APPLICATIONS
[0001] This application is a continuation of U.S. patent
application Ser. No. 14/559,669, filed on Dec. 3, 2014, which is a
continuation of U.S. patent application Ser. No. 13/110,704, filed
on May 18, 2011, now U.S. Pat. No. 8,932,609, which is a divisional
of U.S. patent application Ser. No. 11/722,682, filed on May 2,
2008, now U.S. Pat. No. 8,007,812, which is the national stage of
International Application No. PCT/US2005/046485, filed on Dec. 22,
2005, which claims the benefit of U.S. Provisional Patent
Application No. 60/639,826, filed Dec. 22, 2004, the contents of
all of which are incorporated herein by reference.
FIELD OF THE INVENTION
[0002] This invention relates to the use of flagellin related
polypeptides to protect mammals from the effects of apoptosis. More
specifically, this invention relates to the use of flagellin
related polypeptides to protect mammals from exposure to stress,
such as radiation and cancer treatments.
REFERENCE TO THE SEQUENCE LISTING
[0003] Reference is made to the sequence listing submitted via
EFS-Web, which consists of a file named,
"CLE-003D5-SequenceListing.txt" (135 KB), created on Aug. 17, 2015,
the contents of which are incorporated herein by reference.
BACKGROUND OF THE INVENTION
[0004] The progression from normal cells to tumor cells involves a
loss of negative mechanisms of growth regulation, including
resistance to growth inhibitory stimuli and a lack of dependence on
growth factors and hormones. Traditional cancer treatments that are
based on radiation or cytotoxic drugs rely on the differences in
growth control of normal and malignant cells. Traditional cancer
treatments subject cells to severe genotoxic stress. Under these
conditions, the majority of normal cells become arrested and
therefore saved, while tumor cells continue to divide and die.
[0005] However, the nature of conventional cancer treatment
strategy is such that normal rapidly dividing or apoptosis-prone
tissues are at risk. Damage to these normal rapidly dividing cells
causes the well-known side effects of cancer treatment (sensitive
tissues: hematopoiesis, small intestine, hair follicles). The
natural sensitivity of such tissues is complicated by the fact that
cancer cells frequently acquire defects in suicidal (apoptotic)
machinery and those therapeutic procedures that cause death in
normal sensitive tissues may not be that damaging to cancer cells.
Conventional attempts to minimize the side effects of cancer
therapies are based on (a) making tumor cells more susceptible to
treatment, (b) making cancer therapies more specific for tumor
cells, or (c) promoting regeneration of normal tissue after
treatment (e.g., erythropoietin, GM-CSF, and KGF).
[0006] There continues to be a need for therapeutic agents to
mitigate the side effects associated with chemotherapy and
radiation therapy in the treatment of cancer. This invention
fulfills these needs and provides other related advantages.
SUMMARY OF THE INVENTION
[0007] A method of protecting a mammal from one or more treatments
or conditions that trigger apoptosis comprising administering to
said patient a composition comprising a pharmaceutically effective
amount of flagellin. The flagellin may comprise SEQ ID NO: 1 or a
fragment, variant, analog, homolog, derivative of SEQ ID NO: 1, or
combination thereof. The flagellin may induce TLR-5 mediated
activity.
[0008] The flagellin may be at least 30% identical to amino acids
1-174 and 418-505 of SEQ ID NO: 1. The flagellin may comprise at
least 10 conserved amino acids at positions selected from the group
consisting of 89, 90, 91, 95, 98, 101, 115, 422, 423, 426, 431, 436
and 452. The flagellin may comprise the sequence of SEQ ID NOS: 1,
8, 10, 12, 30, 32, 34, 36, 38, 40, 43, 44, 46, 48, 50 and 52.
[0009] The flagellin may be used to treat a mammal undergoing
cancer treatment, which may be chemotherapy or radiation therapy.
The flagellin may be used to treat a mammal exposed to radiation.
The flagellin may be administered in combination with a
radioprotectant. The flagellin may be used to treat a mammal from
wounding, poisoning, bacterial infection, viral infection and
temperature shock. The flagellin may be used to protect from
apoptosis in tissues including the GI tract, lungs, kidneys, liver,
cardiovascular system, blood vessel endothelium, central and
peripheral neural system, hematopoietic progenitor cells, immune
system, and hair follicles. The flagellin may also be used to
prevent sepsis in the mammal.
[0010] This invention also relates to a method of treating a mammal
suffering from a constitutively active NF-.kappa.B cancer
comprising administering to the mammal a composition comprising a
pharmaceutically acceptable amount of an agent which induces
NF-.kappa.B. The agent may be flagellin. The agent may be
administered prior to, together with, or after a treatment for the
cancer. The treatment may be chemotherapy or radiation therapy.
[0011] This invention also relates to a method of treating a mammal
suffering from damage to normal tissue attributable to treatment of
a cancer comprising administering to the mammal a composition
comprising a pharmaceutically acceptable amount of an agent which
induces NF-.kappa.B. The agent may be flagellin. The agent may be
administered prior to, together with, or after a treatment for the
cancer. The treatment may be chemotherapy or radiation therapy.
[0012] This invention also relates to a method of treating a mammal
suffering from damage to normal tissue attributable to stress,
comprising administering to the mammal a composition comprising a
pharmaceutically acceptable amount of an agent which induces
NF-.kappa.B. The agent may be flagellin. The agent may be
administered prior to, together with, or after a treatment for a
disease suffered by the mammal.
[0013] This invention also relates to a method of modulating cell
aging in a mammal, comprising administering to the mammal a
composition comprising a pharmaceutically acceptable amount of an
agent which induces NF-.kappa.B. The agent may be flagellin. The
agent may be administered prior to, together with, or after a
treatment for a disease suffered by the mammal.
[0014] This invention also relates to a pharmaceutical composition
comprising an agent which induces NF-.kappa.B activity, a
chemotherapeutic drug, and optionally a pharmaceutically acceptable
adjuvant, diluent, or carrier. The agent may be flagellin.
[0015] This invention also relates to a method of screening for an
inducer of NF-.kappa.B comprising adding a suspected inducer to an
NF-.kappa.B activated expression system, and separately adding a
control to an NF-.kappa.B activated expression system, whereby an
inducer of NF-.kappa.B is identified by the ability to increase the
level of NF-.kappa.B activated expression.
[0016] This invention also relates to a method of protecting a
mammal from the effects of radiation comprising administering to
said mammal a composition comprising a pharmaceutically effective
amount of an agent which induces NF-.kappa.B. The agent may be
flagellin, which may be derived from a species of Salmonella. The
composition may be administered in combination with a
radioprotectant. The radioprotectant may be an antioxidant, which
may be amifostine or vitamine E. The radioprotectant may also be a
cytokine, which may be stem cell factor.
[0017] This invention relates to a method of protecting a patient
from one or more treatments or conditions that trigger apoptosis
comprising administering to said patient a composition comprising a
pharmaceutically effective amount of an agent which induces
NF-.kappa.B. The agent may be flagellin, which may be derived from
a species of Salmonella. The treatment may be a cancer treatment,
which may be chemotherapy or radiation therapy. The condition may
be a stress, which may be radiation, wounding, poisoning, infection
and temperature shock.
[0018] This invention also relates to a method of screening for a
modulator of apoptosis comprising adding a suspected modulator to a
cell-based apoptosis system, and separately adding a control to a
cell-based apoptosis system, whereby a modulator of apoptosis is
identified by the ability to alter the rate of apoptosis, wherein
the suspected modulator is derived from a mammalian parasite or
symbiont.
[0019] This invention also relates to a method of screening for a
modulator of NF-.kappa.B comprising adding a suspected modulator to
an NF-.kappa.B activated expression system, and separately adding a
control to an NF-.kappa.B activated expression system, whereby a
modulator of NF-.kappa.B is identified by the ability to alter the
rate of NF-.kappa.B activated expression, wherein the suspected
modulator is derived from a mammalian parasite. The parasite may be
of a species including, but not limited to, Salmonella, Mycoplasma,
and Chlamydia.
[0020] This invention also relates to a modulator identified by any
of the screening methods described herein. This invention also
relates to a composition comprising a modulator described herein.
The composition may be a pharmaceutical composition comprising a
pharmaceutically acceptable amount of a modulator described
herein.
[0021] This invention also relates to a method of treating cancer
comprising administering to a subject in need of such treatment a
pharmaceutical composition comprising a modulator that enhances
apoptosis.
[0022] This invention also relates to a method of protecting a
patient from one or more treatments that trigger apoptosis
comprising administering to said patient a pharmaceutical
composition comprising a modulator that inhibits apoptosis. The one
or more treatments may be a cancer treatment. The cancer treatment
may be chemotherapy or radiation therapy.
BRIEF DESCRIPTION OF THE DRAWINGS
[0023] FIG. 1 demonstrates that p53 deficiency accelerated
development of GI syndrome in mice. Panel A: I.P. injection of
PFT.alpha. (10 mg/kg) protects C57Bl/6J mice (if not indicated
otherwise, here and below 6-8 weeks old males were used) from a
single 9 Gy dose of gamma radiation and a fractioned cumulative
radiation dose 12.5 Gy (5.times.2.5 Gy). PFT.alpha. has no effect
on survival of mice treated with single 12.5 and 25 Gy doses of IR:
(results of representative experiments are shown; Shepherd 4000 Ci
Cesium 137 source at a dose rate of 4 Gy per minute was used).
Panel B: Wild-type and p53-null C57Bl/6J mice differ in their
relative sensitivity to low (10 Gy) and high (15Gy) doses of gamma
radiation: wild-type mice were more sensitive to 10 Gy but more
resistant to 15 Gy as compared to p53-null mice. Panel C: Mice
treated with 11 Gy of total body gamma irradiation were injected 12
h later with 1.5.times.10.sup.7 bone marrow cells from wild type or
p53-null syngeneic C57Bl/6J mice. (This dose causes 100% lethality
in nonreconstituted controls group of mice). Two months later,
after complete recovery of hematopoiesis, animals were treated with
15 Gy of total body gamma radiation and showed no difference in
death rates between the two groups differing in the p53 status of
their bone marrow. Panel D: Comparison of dynamics of injury to
small intestines of wild-type and p53-null mice at the indicated
time points after 15 Gy of gamma radiation indicates accelerated
damage in p53-null mice (haematoxylin-eosin stained paraffin
sections; magnification .times.125). 24 h panels include images of
TUNEL staining if sections of crypts: massive apoptosis is evident
in wild type but not in p53-deficient epithelium.
[0024] FIG. 2 demonstrates the dynamics of cell proliferation and
survival in small intestine of wild type and p53-null mice. Panel
A: Comparison of proliferation rates in intestines of wild-type and
p53 null mice after treatment with IR. (Left) Autoradiographs of
whole-body sections (1.7.times. magnification) of 4-week-old
wild-type and p53 null mice injected intraperitoneally with
.sup.14C-thymidine (10 .mu.Ci per animal) treated or untreated with
15 Gy of gamma radiation. Arrows point at intestines. (Right)
Comparison of BrdU incorporation in small intestine of wild-type
and p53-null mice at different time points after 15 Gy of gamma
radiation. BrdU (50 mg/kg) was injected 2 h before sacrificing mice
followed by immunostaining. Fragments of 96 h panels are shown at
higher magnification (.times.400). Panel B: Comparison of the
number of BrdU positive cells/crypt in small intestine of wild-type
and p53-null mice at different time points after 15 Gy of gamma
radiation. Three animals were analyzed for each time point, five
ileum cross sections were prepared from each animal and analyzed
microscopically to estimate the number of crypts and villi. Numbers
of BrdU-positive cells in the crypts were counted in 5 random
fields under 200.times. magnification (100-30 crypts) and the
average number of BrdU-positive cells was plotted. Panel C: Tracing
the number and position of BrdU-labeled cells in small intestine of
wild type and p53-null mice during different time points after 15
Gy of gamma radiation. BrdU was injected 30 min. before irradiation
and mice were sacrificed at the indicated time points. Accelerated
migration from crypts to villi followed by rapid elimination of
labeled cells was observed in p53-null mice.
[0025] FIG. 3 demonstrates that recombinant flagellin is capable of
NF-.kappa.B activation.
[0026] FIG. 4 shows a representative experiment testing the ability
of flagellin to protect mice from radiation. C56BL6 mice (6 week
old males, 10 animals per group) were injected i.v. with 2.0 .mu.g
(0.1 mg/kg) or 5 .mu.g (0.25 mg/kg) of flagellin in PBS. Four hours
later, mice were irradiated with 15 Gy and mouse survival was
monitored daily.
[0027] FIG. 5 shows histological sections (HE stained) of small
intestinal epithelium of mice that were treated with 15 Gy of gamma
radiation with or without i.v. injection of 0.25 mg/kg of
flagellin. Complete destruction of crypts and villi in control
mouse contrasts with close to normal morphology of tissue from
flagellin-treated animal.
[0028] FIG. 6 shows the effect of flagellin on mouse sensitivity to
10Gy of total body gamma radiation.
[0029] FIG. 7 shows the effect of flagellin injected i.v. at
indicated times before irradiation on mouse sensitivity to 13Gy
(left) and 10Gy (right) of total body gamma radiation.
[0030] FIG. 8 shows the effect of flagellin on mouse sensitivity to
10, 13 and 15 Gy of total body gamma radiation.
[0031] FIG. 9 shows the domain structure of bacterial flagellin.
The Ca backbone trace, hydrophobic core distribution and structural
information of F41. Four distinct hydrophobic cores that define
domains D1, D2a, D2b and D3. All the hydrophobic side-chain atoms
are displayed with the Ca backbone. Side-chain atoms are color
coded: Ala, yellow; Leu, Ile or Val, orange; Phe and Tyr, purple
(carbon atoms) and red (oxygen atoms). c, Position and region of
various structural features in the amino-acid sequence of
flagellin. Shown are, from top to bottom: the F41 fragment in blue;
three b-folium folds in brown; the secondary structure distribution
with a-helix in yellow, b-structure in green, and b-turn in purple;
tic mark at every 50th residue in blue; domains D0, D1, D2 and D3;
the axial subunit contact region within the proto-element in cyan;
the well-conserved amino-acid sequence in red and variable region
in violet; point mutations in F41 that produce the elements of
different supercoils. Letters at the bottom indicate the morphology
of mutant elements: L (D107E, R124A, R124S, G426A), L-type
straight; R (A449V), R-type straight; C (D313Y, A414V, A427V,
N433D), curly33.
[0032] FIG. 10 shows a schematic of Salmonella flagellin domains,
its fragments, and its interaction with TLR5. Dark bars denote
regions of the flagellin gene used to construct fragments
comprising A, B, C, A' and B'.
[0033] FIG. 11 shows soluble flagellin (FliC), and two fragments
(AA' and BB') after fractionation by SDS-PAGE, with molecular
weight markers listed to the left.
[0034] FIG. 12 shows induction of NF-.kappa.B nuclear translocation
by Salmonella flagellin (FliC) and flagellin fragments.
[0035] FIG. 13 shows activation of NF-.kappa.B-regulated luciferase
reporter construct by flagellin and flagellin fragments in H116
cells. Concentrations of proteins are given in .mu.g/ml.
[0036] FIG. 14 shows NF-.kappa.B DNA binding in HT29 human colon
cancer cells induced by flagellin and flagellin fragments.
[0037] FIG. 15 shows the activation of a NF-.kappa.B reporter in
HCT116 reporter cells by full-length flagellin and flagellin
fragments.
[0038] FIG. 16 shows a comparison of the radioprotective properties
of flagellin (FliC) and fragments AA' and BB'.
[0039] FIG. 17 shows that the AA' fragment protects intestinal
epithelium from degeneration caused by radiation. A: Histological
sections (hematoxylin and eosin-stained) of small intestinal
epithelium of mice 5 days after 14 Gy irradiation are shown. B:
Treatment with the AA' fragment prevents apoptosis ongoing 5 hours
after irradiation in endothelial cells of villi (detected by
immunostaining for endothelial marker CD31 and marked by arrows),
as determined by TUNEL assay. C: Histological sections of skin of
mice 5 days after 14Gy of gamma irradiation demonstrate the
protective effect of the AA' fragment for sebaceous glands (red
arrows).
[0040] FIG. 18 shows that the AA' fragment provides partial
protection and delays death of mice after supralethal irradiation
with 17 and 20 Gy total-body gamma radiation.
[0041] FIG. 19 shows anti-flagellin antibody titers induced in mice
after 21 and 28 days by flagellin and AA'. For individual mice, the
averages of two measurements are shown. Mice were injected with:
Fl: flagellin; or AA'. 21 d and 28 ds--mice injected with first
dose 21 and 28 days before second, respectively. PBS: saline buffer
(no serum) control; blank: empty well reading control.
[0042] FIG. 20 shows anti-flagellin antibody titers induced in mice
after 21 and 28 days by flagellin and AA'. For individual mice, the
averages of two measurements are shown. Mice were injected with:
Fl: flagellin; or AA'. 21 d and 28 ds--mice injected with first
dose 21 and 28 days before second, respectively. PBS: saline buffer
(no serum) control; blank: empty well reading control.
[0043] FIG. 21 shows that flagellin fragment AA' protects mice from
multiple successive doses of gamma-irradiation. Arrows denote
radiation treatments (days 1-4).
[0044] FIG. 22 shows the effect of AA' on tumor sensitivity to
radiation treatment. Left Panel: NIH3T3-derived sarcoma cells were
injected s.c. in NIH-Swiss mice. When tumors reached 7-10 mm in
diameter, mice received three 4.3 Gy doses of total body
irradiation, with or without pretreatment with AA'. The dynamics of
tumor growth after radiation treatment is displayed. U/t:
untreated; AA': AA' with no irradiation; 3.times.4Gy: irradiation
only; 3.times.4Gy+AA': AA' and irradiation. (The shape of curves
reflects slow growth of tumors that is a characteristic of this
model). Results are displayed as relative tumor volumes normalized
to tumor volume measured at day 7 after last irradiation. Right
Panel: The experiment was done in the same way with another
syngeneic mouse tumor model: B16 melanoma (C57BL6 background).
Treatment was applied when tumors reached 4-5 mm in diameter and
involved three subsequent 4 Gy doses of total body gamma radiation
applied with or without pretreatment with AA' (30 min. before
irradiation, 5 .mu.g/mouse).
[0045] FIG. 23 shows the influence of NS398 on the radioprotection
of LPS and AA' in mice after 13 Gy of total-body gamma
irradiation.
[0046] FIGS. 24A and 24B show a comparison of amino acid sequences
of the conserved amino (FIG. 24A) and carboxy (FIG. 24B) terminus
from 21 species of bacteria. The 13 conserved amino acids important
for TLR5 activity are shown with shading. The amino acid sequences
are identified by their accession numbers from TrEMBL (first
letter=Q) or Swiss-Prot (first letter=P). The amino terminus
sequences have SEQ ID NOs: 1-21, respectively, for each of the 21
bacterial species, and the carboxy terminus sequences have SEQ ID
NOs: 22-42, respectively.
[0047] FIGS. 25A-D show results of a BLAST search using SEQ ID NO:
1 as the query sequence. The parameters used in all searches was as
follows: expected value cutoff=lO, matrix=BLOSUM62, gap penalties
of existence=11 and extension=1, filtering=none. FIG. 25A:
NR_Bacteria (Protein-Protein); FIG. 25B: NR_Bacteria (Protein-DNA);
FIG. 25C: Bacterial Genomes (Protein-Protein); FIG. 25D: Bacterial
Genomes (Protein-DNA).
[0048] FIG. 26 shows the percentage identities of the amino- and
carboxy-terminus of the homologs shown in FIG. 24 compared to SEQ
ID NO: 1, as shown in BLAST results using the same search
parameters as listed for FIGS. 25A-D.
[0049] FIG. 27 demonstrates that AA' mediates rescue of multiple
mouse strains after 10 Gy total-body .gamma.-IR. Cone heights
represent fractions of survivors.
[0050] FIG. 28 demonstrates the pharmacokinetics of AA' after
intravenous (i.v.), subcutaneous (s.c.), intraperitoneal (i.p.) or
intramuscular (i.m.) injection.
[0051] FIG. 29 demonstrates the extended pharmacokinetics of AA'
after intramuscular (i.m.) injection.
[0052] FIG. 30 demonstrates the influence of AA' on
gamma-irradiation induced cell death and growth inhibition in A549
cells.
[0053] FIG. 31 demonstrates the influence of AA' on
gamma-irradiation induced cell death and growth inhibition in
multiple cell lines.
[0054] FIG. 32 demonstrates the influence of irradiation and AA' on
BrdU incorporation in small intestinal crypts of NIH-Swiss mice. A
comparison of BrdU incorporation in small intestine of control and
AA' treated NIH-Swiss mice, with and without 15 Gy of gamma
radiation is shown. BrdU (50 mg/kg) was injected 1.5 h before
sacrificing mice and immunostaining was done as previously
described (Watson A J & Pritchard D M., Am J Physiol
Gastrointest Liver Physiol. 2000 January; 278(1):G 1-5). Red
channel of the image is shown (positive signal is bright white on
the dark background).
[0055] FIG. 33 demonstrates the duration of AA'-mediated growth
arrest and reduced BrdU incorporation in small intestine of mice.
BrdU (50 mg/kg) was injected in Balb/c mice i.p., 1 or 4 hrs after
CBLB502 (AA') injection. Samples of small intestine were obtained
1.5 hrs after BrdU injection. Immunostaining was done as previously
described (Watson A J & Pritchard D M., Am J Physiol
Gastrointest Liver Physiol. 2000 January; 278(1):G 1-5). Inverted
image is shown (positive signal is dark on the light
background).
[0056] FIG. 34 demonstrates the influence of AA' on BrdU
incorporation in colonic crypts of NIH-Swiss mice. BrdU (50 mg/kg)
was injected in NIH-Swiss mice i.p., 1 hr after CBLB502 (AA')
injection, Samples of colon were obtained 1.5 hrs after BrdU
injection. Immunostaining was done as previously described (Watson
A J & Pritchard D M., Am J Physiol Gastrointest Liver Physiol.
2000 January; 278(1):G1-5). Inverted image is shown (positive
signal is dark on the light background). Bottom panel shows smaller
magnification/larger area of the sample.
[0057] FIG. 35 demonstrates the morphology of small intestine in
TLR5 deficient MOLF/Ei and TLR5 wt NIH-Swiss mice after treatment
with AA'.
[0058] FIG. 36 depicts flagellin derivatives. The domain structure
and approximate boundaries (amino acid coordinates) of selected
flagellin derivatives (listed on the right). FliC flagellin of
Salmonella dublin is encoded within 505 amino acids (aa).
[0059] FIG. 37 shows the testing of additional flagellin
derivatives tested for NF-.kappa.B stimulating activity.
[0060] FIG. 38 shows the nucleotide and amino acid sequence for the
following flagellin variants: AA' (SEQ ID NO: 7-8), AB' (SEQ ID NO:
9-10), BA' (SEQ ID NO: 11-12), BB' (SEQ ID NO: 13-14), CA' (SEQ ID
NO: 15-16), CB' (SEQ ID NO: 17-18), A (SEQ ID NO: 19-20), B (SEQ ID
NO: 21-22), C (SEQ ID NO: 23-24), GST-A' (SEQ ID NO: 25-26), GST-B'
(SEQ ID NO: 27-28), AA'n1-170 (SEQ ID NO: 29-30), AA'n1-163 (SEQ ID
NO: 33-34), AA'n54-170 (SEQ ID NO: 31-32), AA'n54-163 (SEQ ID NO:
335-36), AB'n1-170 (SEQ ID NO: 37-38), AB'n1-163 (SEQ ID NO:
39-40), AA'n1-129 (SEQ ID NO: 41-42), AA'n54-129 (SEQ ID NO:
43-44), AB'n1-129 (SEQ ID NO: 45-46), AB'n54-129 (SEQ ID NO:
47-48), AA'n1-100 (SEQ ID NO: 49-50), AB'n1-100 (SEQ ID NO: 51-52),
AA'n1-70 (SEQ ID NO: 53-54) and AB'n1-70 (SEQ ID NO: 55-56). The
pRSETb leader sequence is shown in Italic (leader includes Met,
which is also amino acid 1 of FliC). The N terminal constant domain
is underlined. The amino acid linker sequence is in Bold. The C
terminal constant domain is underlined. GST, if present, is
highlighted.
DETAILED DESCRIPTION
[0061] This invention is related to protecting normal cells and
tissues from apoptosis caused by stresses including, but not
limited to, chemotherapy, radiation therapy and radiation. There
are two major mechanisms controlling apoptosis in the cell: the p53
pathway (pro-apoptotic) and the NF-.kappa.B pathway
(anti-apoptotic). Both pathways are frequently deregulated in
tumors: p53 is usually lost, while NF-.kappa.B becomes
constitutively active. Hence, inhibition of p53 and activation of
NF-.kappa.B in normal cells may protect them from death caused by
stresses, such as cancer treatment, but would not make tumor cells
more resistant to treatment because they have these control
mechanisms deregulated. This contradicts the conventional view on
p53 and NF-.kappa.B, which are considered as targets for activation
and repression, respectively.
[0062] This invention relates to inducing NF-.kappa.B activity to
protect normal cells from apoptosis. By inducing NF-.kappa.B
activity in a mammal, normal cells may be protected from apoptosis
attributable to cellular stress, which occurs in cancer treatments
and hyperthermia; exposure to harmful doses of radiation, for
example, workers in nuclear power plants, the defense industry or
radiopharmaceutical production, and soldiers; and cell aging. Since
NF-.kappa.B is constitutively active in many tumor cells, the
induction of NF-.kappa.B activity may protect normal cells from
apoptosis without providing a beneficial effect to tumor cells.
Once the normal cells are repaired, NF-.kappa.B activity may be
restored to normal levels. NF-.kappa.B activity may be induced to
protect such radiation- and chemotherapy-sensitive tissues as the
hematopoietic system (including immune system), the epithelium of
the gut, and hair follicles.
[0063] Inducers of NF-.kappa.B activity may also be used for
several other applications. Pathological consequences and death
caused by exposure of mammals to a variety of severe conditions
including, but not limited to, radiation, wounding, poisoning,
infection, aging, and temperature shock, may result from the
activity of normal physiological mechanisms of stress response,
such as induction of programmed cell death (apoptosis) or release
of bioactive proteins, cytokines.
[0064] Apoptosis normally functions to "clean" tissues from wounded
and genetically damaged cells, while cytokines serve to mobilize
the defense system of the organism against the pathogen. However,
under conditions of severe injury both stress response mechanisms
can by themselves act as causes of death. For example, lethality
from radiation may result from massive p53-mediated apoptosis
occurring in hematopoietic, immune and digestive systems. Rational
pharmacological regulation of NF-.kappa.B may increase survival
under conditions of severe stress. Control over these factors may
allow control of both inflammatory response and the life-death
decision of cells from the injured organs. Tissues that may be
protected from apoptosis by administering NF-.kappa.B inducers
include, but are not limited to, the GI tract, lungs, kidneys,
liver, cardiovascular system, blood vessel endothelium, central and
peripheral neural system, hematopoietic progenitor cells, immune
system, and hair follicles.
[0065] The protective role of NF-.kappa.B is mediated by
transcriptional activation of multiple genes coding for: a)
anti-apoptotic proteins that block both major apoptotic pathways,
b) cytokines and growth factors that induce proliferation and
survival of HP and other stem cells, and c) potent ROS-scavenging
antioxidant proteins, such as MnSOD (SOD-2). Thus, by temporal
activation of NF-.kappa.B for radioprotection, it may be possible
to achieve not only suppression of apoptosis in cancer patients,
but also the ability to reduce the rate of secondary cancer
incidence because of simultaneous immunostimulatory effect, which,
may be achieved if activation of NF-.kappa.B is reached via
activation of Toll-like receptors.
[0066] Another attractive property of the NF-.kappa.B pathway as a
target is its activation by numerous natural factors that can be
considered as candidate radioprotectants. Among these, are multiple
pathogen-associated molecular patterns (PAMPs). PAMPs are molecules
that are not found in the host organism, are characteristic for
large groups of pathogens, and cannot be easily mutated. They are
recognized by Toll-like receptors (TLRs), the key sensor elements
of innate immunity. TLRs act as a first warning mechanism of immune
system by inducing migration and activation of immune cells
directly or through cytokine release. TLRs are type I membrane
proteins, known to work as homo- and heterodimers. Upon ligand
binding, TLRs recruit MyD88 protein, an indispensable signaling
adaptor for most TLRs. The signaling cascade that follows leads to
effects including (i) activation of NF-.kappa.B pathway, and (ii)
activation of MAPKs, including Jun N-terminal kinease (JNK). The
activation of the NF-.kappa.B pathway by Toll-like receptor ligands
makes the ligands attractive as potential radioprotectors. Unlike
cytokines, many PAMPs have little effect besides activating TLRs
and thus are unlikely to produce side effects. Moreover, many PAMPs
are present in humans.
[0067] Consistently with their function of immunocyte activation,
all TLRs are expressed in spleen and peripheral blood leukocytes,
with more TLR-specific patterns of expression in other lymphoid
organs and subsets of leukocytes. However, TLRs are also expressed
in other tissues and organs of the body, e.g., TLR1 is expressed
ubiquitously, TLR5 is also found in GI epithelium and endothelium,
while TLRs 2, 6, 7 and 8 are known to be expressed in lung.
1. DEFINITIONS
[0068] It is to be understood that the terminology used herein is
for the purpose of describing particular embodiments only and is
not intended to be limiting. It must be noted that, as used in the
specification and the appended claims, the singular forms "a," "an"
and "the" include plural referents unless the context clearly
dictates otherwise.
[0069] As used herein, the terms "administer" when used to describe
the dosage of an agent that induces NF-.kappa.B activity, means a
single dose or multiple doses of the agent.
[0070] As used herein, the term "analog", when used in the context
of a peptide or polypeptide, means a peptide or polypeptide
comprising one or more non-standard amino acids or other structural
variations from the conventional set of amino acids.
[0071] As used herein, the term "antibody" means an antibody of
classes IgG, IgM, IgA, IgD or IgE, or fragments, fragments or
derivatives thereof, including Fab, F(ab').sub.2, Fd, and single
chain antibodies, diabodies, bispecific antibodies, bifunctional
antibodies and derivatives thereof. The antibody may be a
monoclonal antibody, polyclonal antibody, affinity purified
antibody, or mixtures thereof which exhibits sufficient binding
specificity to a desired epitope or a sequence derived therefrom.
The antibody may also be a chimeric antibody. The antibody may be
derivatized by the attachment of one or more chemical, peptide, or
polypeptide moieties known in the art. The antibody may be
conjugated with a chemical moiety.
[0072] As used herein, "apoptosis" refers to a form of cell death
that includes progressive contraction of cell volume with the
preservation of the integrity of cytoplasmic organelles;
condensation of chromatin (i.e., nuclear condensation), as viewed
by light or electron microscopy; and/or DNA cleavage into
nucleosome-sized fragments, as determined by centrifuged
sedimentation assays. Cell death occurs when the membrane integrity
of the cell is lost (e.g., membrane blebbing) with engulfment of
intact cell fragments ("apoptotic bodies") by phagocytic cells.
[0073] As used herein, the term "cancer" means any malignant growth
or tumor caused by abnormal and uncontrolled cell division; it may
spread to other parts of the body through the lymphatic system or
the blood stream.
[0074] As used herein, the term "cancer treatment" means any
treatment for cancer known in the art including, but not limited
to, chemotherapy and radiation therapy.
[0075] As used herein, the term "combination with" when used to
describe administration of an agent that induces NF-.kappa.B
activity and an additional treatment means that the agent may be
administered prior to, together with, after, or metronomically with
the additional treatment. The term "together with," "simultaneous"
or "simultaneously" as used herein, means that the additional
treatment and the agent of this invention are administered within
48 hours, preferably 24 hours, more preferably 12 hours, yet more
preferably 6 hours, and most preferably 3 hours or less, of each
other. The term "metronomically" as used herein means the
administration of the agent at times different from the additional
treatment and at certain frequency relative to repeat
administration and/or the additional treatment.
[0076] The agent may be administered at any point prior to the
additional treatment including, but not limited to, about 48 hr, 46
hr, 44 hr, 42 hr, 40 hr, 38 hr, 36 hr, 34 hr, 32 hr, 30 hr, 28 hr,
26 hr, 24 hr, 22 hr, 20 hr, 18 hr, 16 hr, 14 hr, 12 hr, 10 hr, 8
hr, 6 hr, 4 hr, 3 hr, 2 hr, or 1 hr prior to the additional
treatment. The agent may be administered at any point after the
additional treatment including, but not limited to, about 1 hr, 2
hr, 3 hr, 4 hr, 6 hr, 8 hr, 10 hr, 12 hr, 14 hr, 16 hr, 18 hr, 20
hr, 22 hr, 24 hr, 26 hr, 28 hr, 30 hr, 32 hr, 34 hr, 36 hr, 38 hr,
40 hr, 42 hr, 44 hr, 46 hr, or 48 hr after exposure.
[0077] As used herein, the term "derivative", when used in the
context of a peptide or polypeptide, means a peptide or polypeptide
different other than in primary structure (amino acids and amino
acid analogs). By way of illustration, derivatives may differ by
being glycosylated, one form of post-translational modification.
For example, peptides or polypeptides may exhibit glycosylation
patterns due to expression in heterologous systems. If at least one
biological activity is retained, then these peptides or
polypeptides are derivatives according to the invention. Other
derivatives include, but are not limited to, fusion peptides or
fusion polypeptides having a covalently modified N- or C-terminus,
PEGylated peptides or polypeptides, peptides or polypeptides
associated with lipid moieties, alkylated peptides or polypeptides,
peptides or polypeptides linked via an amino acid side-chain
functional group to other peptides, polypeptides or chemicals, and
additional modifications as would be understood in the art.
[0078] As used herein, the term "fragment", when used in the
context of a peptide or polypeptide, means a portion of a reference
peptide or polypeptide.
[0079] As used herein, the term "homolog", when used in the context
of a peptide or polypeptide, means a peptide or polypeptide sharing
a common evolutionary ancestor.
[0080] As used herein, the term "treat" or "treating" when
referring to protection of a mammal from a condition, means
preventing, suppressing, repressing, or eliminating the condition.
Preventing the condition involves administering a composition of
this invention to a mammal prior to onset of the condition.
Suppressing the condition involves administering a composition of
this invention to a mammal after induction of the condition but
before its clinical appearance. Repressing the condition involves
administering a composition of this invention to a mammal after
clinical appearance of the condition such that the condition is
reduced or maintained. Elimination the condition involves
administering a composition of this invention to a mammal after
clinical appearance of the condition such that the mammal no longer
suffers the condition.
[0081] As used herein, the term "tumor cell" means any cell
associated with a cancer.
[0082] As used herein, the term "variant", when used in the context
of a peptide or polypeptide, means a peptide or polypeptide that
differs in amino acid sequence by the insertion, deletion, or
conservative substitution of amino acids, but retain at least one
biological activity. Representative examples of "biological
activity" include, but are not limited to, the ability to bind to
TLR5 and to be bound by a specific antibody. A conservative
substitution of an amino acid, i.e., replacing an amino acid with a
different amino acid of similar properties (e.g., hydrophilicity,
degree and distribution of charged regions) is recognized in the
art as typically involving a minor change. These minor changes can
be identified, in part, by considering the hydropathic index of
amino acids, as understood in the art. Kyte et al., J. Mol. Biol.
157:105-132 (1982). The hydropathic index of an amino acid is based
on a consideration of its hydrophobicity and charge. It is known in
the art that amino acids of similar hydropathic indexes can be
substituted and still retain protein function. In one aspect, amino
acids having hydropathic indexes of .+-.2 are substituted. The
hydrophilicity of amino acids can also be used to reveal
substitutions that would result in proteins retaining biological
function. A consideration of the hydrophilicity of amino acids in
the context of a peptide permits calculation of the greatest local
average hydrophilicity of that peptide, a useful measure that has
been reported to correlate well with antigenicity and
immunogenicity. U.S. Pat. No. 4,554,101, incorporated herein by
reference. Substitution of amino acids having similar
hydrophilicity values can result in peptides retaining biological
activity, for example immunogenicity, as is understood in the art.
In one aspect, substitutions are performed with amino acids having
hydrophilicity values within .+-.2 of each other. Both the
hyrophobicity index and the hydrophilicity value of amino acids are
influenced by the particular side chain of that amino acid.
Consistent with that observation, amino acid substitutions that are
compatible with biological function are understood to depend on the
relative similarity of the amino acids, and particularly the side
chains of those amino acids, as revealed by the hydrophobicity,
hydrophilicity, charge, size, and other properties.
2. METHODS OF TREATMENT
[0083] a. Constitutively Active NF-.kappa.B Tumor
[0084] This invention relates to a method of treating a mammal
suffering from a constitutively active NF-.kappa.B cancer
comprising administering to the mammal a composition comprising a
therapeutically effective amount of an agent that induces
NF-.kappa.B activity. The agent that induces NF-.kappa.B activity
may be administered in combination with a cancer treatment, such as
chemotherapy and radiation therapy.
[0085] The cancer treatment may comprise administration of a
cytotoxic agent or cytostatic agent, or combination thereof.
Cytotoxic agents prevent cancer cells from multiplying by: (1)
interfering with the cell's ability to replicate DNA and (2)
inducing cell death and/or apoptosis in the cancer cells.
Cytostatic agents act via modulating, interfering or inhibiting the
processes of cellular signal transduction which regulate cell
proliferation and sometimes at low continuous levels.
[0086] Classes of compounds that may be used as cytotoxic agents
include, but are not limited to, the following: alkylating agents
(including, without limitation, nitrogen mustards, ethylenimine
derivatives, alkyl sulfonates, nitrosoureas and triazenes): uracil
mustard, chlormethine, cyclophosphamide (Cytoxan.RTM.), ifosfamide,
melphalan, chlorambucil, pipobroman, triethylene-melamine,
triethylenethiophosphoramine, busulfan, carmustine, lomustine,
streptozocin, dacarbazine, and temozolomide; antimetabolites
(including, without limitation, folic acid antagonists, pyrimidine
analogs, purine analogs and adenosine deaminase inhibitors):
methotrexate, 5-fluorouracil, floxuridine, cytarabine,
6-mercaptopurine, 6-thioguanine, fludarabine phosphate,
pentostatine, and gemcitabine; natural products and their
derivatives (for example, vinca alkaloids, antitumor antibiotics,
enzymes, lymphokines and epipodophyllotoxins): vinblastine,
vincristine, vindesine, bleomycin, dactinomycin, daunorubicin,
doxorubicin, epirubicin, idarubicin, ara-c, paclitaxel (paclitaxel
is commercially available as Taxol.RTM.), mithramycin,
deoxyco-formycin, mitomycin-c, 1-asparaginase, interferons
(preferably IFN-.alpha.), etoposide, and teniposide. Other
proliferative cytotoxic agents are navelbene, CPT-11, anastrazole,
letrazole, capecitabine, reloxafine, cyclophosphamide, ifosamide,
and droloxafine.
[0087] Microtubule affecting agents interfere with cellular mitosis
and are well known in the art for their cytotoxic activity.
Microtubule affecting agents useful in the invention include, but
are not limited to, allocolchicine (NSC 406042), halichondrin B
(NSC 609395), colchicine (NSC 757), colchicine derivatives (e.g.,
NSC 33410), dolastatin 10 (NSC 376128), maytansine (NSC 153858),
rhizoxin (NSC 332598), paclitaxel (Taxol.RTM., NSC 125973),
Taxol.RTM. derivatives (e.g., derivatives (e.g., NSC 608832),
thiocolchicine (NSC 361792), trityl cysteine (NSC 83265),
vinblastine sulfate (NSC 49842), vincristine sulfate (NSC 67574),
natural and synthetic epothilones including but not limited to
epothilone A, epothilone B, and discodermolide (see Service, (1996)
Science, 274:2009) estramustine, nocodazole, MAP4, and the like.
Examples of such agents are also described in Bulinski (1997) J.
Cell Sci. 110:3055 3064; Panda (1997) Proc. Natl. Acad. Sci. USA
94:10560-10564; Muhlradt (1997) Cancer Res. 57:3344-3346; Nicolaou
(1997) Nature 387:268-272; Vasquez (1997) Mol. Biol. Cell.
8:973-985; and Panda (1996) J. Biol. Chem 271:29807-29812.
[0088] Also suitable are cytotoxic agents such as epidophyllotoxin;
an antineoplastic enzyme; a topoisomerase inhibitor; procarbazine;
mitoxantrone; platinum coordination complexes such as cis-platin
and carboplatin; biological response modifiers; growth inhibitors;
antihormonal therapeutic agents; leucovorin; tegafur; and
haematopoietic growth factors.
[0089] Cytostatic agents that may be used include, but are not
limited to, hormones and steroids (including synthetic analogs):
17.alpha.-ethinylestradiol, diethylstilbestrol, testosterone,
prednisone, fluoxymesterone, dromostanolone propionate,
testolactone, megestrolacetate, methylprednisolone,
methyl-testosterone, prednisolone, triamcinolone, hlorotrianisene,
hydroxyprogesterone, aminoglutethimide, estramustine,
medroxyprogesteroneacetate, leuprolide, flutamide, toremifene,
zoladex.
[0090] Other cytostatic agents are antiangiogenics such as matrix
metalloproteinase inhibitors, and other VEGF inhibitors, such as
anti-VEGF antibodies and small molecules such as ZD6474 and SU6668
are also included. Anti-Her2 antibodies from Genetech may also be
utilized. A suitable EGFR inhibitor is EKB-569 (an irreversible
inhibitor). Also included are Imclone antibody C225 immunospecific
for the EGFR, and src inhibitors.
[0091] Also suitable for use as an cytostatic agent is Casodex.RTM.
(bicalutamide, Astra Zeneca) which renders androgen-dependent
carcinomas non-proliferative. Yet another example of a cytostatic
agent is the antiestrogen Tamoxifen.RTM. which inhibits the
proliferation or growth of estrogen dependent breast cancer.
Inhibitors of the transduction of cellular proliferative signals
are cytostatic agents. Representative examples include epidermal
growth factor inhibitors, Her-2 inhibitors, MEK-1 kinase
inhibitors, MAPK kinase inhibitors, PI3 inhibitors, Src kinase
inhibitors, and PDGF inhibitors.
[0092] A variety of cancers may be treated according to this
invention including, but not limited to, the following: carcinoma
including that of the bladder (including accelerated and metastatic
bladder cancer), breast, colon (including colorectal cancer),
kidney, liver, lung (including small and non-small cell lung cancer
and lung adenocarcinoma), ovary, prostate, testes, genitourinary
tract, lymphatic system, rectum, larynx, pancreas (including
exocrine pancreatic carcinoma), esophagus, stomach, gall bladder,
cervix, thyroid, and skin (including squamous cell carcinoma);
hematopoietic tumors of lymphoid lineage including leukemia, acute
lymphocytic leukemia, acute lymphoblastic leukemia, B-cell
lymphoma, T-cell lymphoma, Hodgkins lymphoma, non-Hodgkins
lymphoma, hairy cell lymphoma, histiocytic lymphoma, and Burketts
lymphoma; hematopoietic tumors of myeloid lineage including acute
and chronic myelogenous leukemias, myelodysplastic syndrome,
myeloid leukemia, and promyelocytic leukemia; tumors of the central
and peripheral nervous system including astrocytoma, neuroblastoma,
glioma, and schwannomas; tumors of mesenchymal origin including
fibrosarcoma, rhabdomyoscarcoma, and osteosarcoma; and other tumors
including melanoma, xenoderma pigmentosum, keratoactanthoma,
seminoma, thyroid follicular cancer, teratocarcinoma, and cancers
of the gastrointestinal tract or the abdominopelvic cavity.
[0093] b. Treatment of Side Effects from Cancer Treatment
[0094] This invention also relates to a method of treating a mammal
suffering from damage to normal tissue attributable to treatment of
a constitutively active NF-.kappa.B cancer, comprising
administering to the mammal a composition comprising a
therapeutically effective amount of an agent that induces
NF-.kappa.B activity. The agent that induces NF-.kappa.B activity
may be administered in combination with a cancer treatment
described above.
[0095] c. Modulation of Cell Aging
[0096] This invention also relates to a method of modulating cell
aging in a mammal, comprising administering to the mammal a
therapeutically effective amount of an agent that induces
NF-.kappa.B activity. The agent that induces NF-.kappa.B activity
may be administered in combination with other treatments.
[0097] d. Treatment of Stress
[0098] This invention also relates to a method of treating a mammal
suffering from damage to normal tissue attributable to stress,
comprising administering to the mammal a composition comprising a
therapeutically effective amount of an agent that induces
NF-.kappa.B activity. The agent that induces NF-.kappa.B activity
may be administered in combination with other treatments. The
stress may be attributable to any source including, but not limited
to, radiation, wounding, poisoning, infection, and temperature
shock.
[0099] e. Radiation
[0100] This invention is also related to the protection of cells
from the effects of exposure to radiation. Injury and death of
normal cells from ionizing radiation is a combination of direct
radiation-induced damage to the exposed cells and an active
genetically programmed cell reaction to radiation-induced stress
resulting in suicidal death or apoptosis. Apoptosis plays a key
role in massive cell loss occurring in several radiosensitive
organs (i.e., hematopoietic and immune systems, epithelium of
digestive tract, etc.), the failure of which determines general
radiosensitivity of the organism.
[0101] Exposure to ionizing radiation (IR) may be short- or
long-term, it may be applied as a single or multiple doses, to the
whole body or locally. Thus, nuclear accidents or military attacks
may involve exposure to a single high dose of whole body
irradiation (sometimes followed by a long-term poisoning with
radioactive isotopes). The same is true (with strict control of the
applied dose) for pretreatment of patients for bone marrow
transplantation when it is necessary to prepare hematopoietic
organs for donor's bone marrow by "cleaning" them from the host
blood precursors. Cancer treatment may involve multiple doses of
local irradiation that greatly exceeds lethal dose if it were
applied as a total body irradiation. Poisoning or treatment with
radioactive isotopes results in a long-term local exposure to
radiation of targeted organs (e.g., thyroid gland in the case of
inhalation of 125I). Finally, there are many physical forms of
ionizing radiation differing significantly in the severity of
biological effects.
[0102] At the molecular and cellular level, radiation particles are
able to produce breakage and cross-linking in the DNA, proteins,
cell membranes and other macromolecular structures. Ionizing
radiation also induces the secondary damage to the cellular
components by giving rise to the free radicals and reactive oxygen
species (ROS). Multiple repair systems counteract this damage, such
as several DNA repair pathways that restore the integrity and
fidelity of the DNA, and antioxidant chemicals and enzymes that
scavenge the free radicals and ROS and reduce the oxidized proteins
and lipids. Cellular checkpoint systems detect the DNA defects and
delay cell cycle progression until damage is repaired or decision
to commit cell to growth arrest or programmed cell death
(apoptosis) is reached
[0103] Radiation can cause damage to mammalian organism ranging
from mild mutagenic and carcinogenic effects of low doses to almost
instant killing by high doses. Overall radiosensitivity of the
organism is determined by pathological alterations developed in
several sensitive tissues that include hematopoietic system,
reproductive system and different epithelia with high rate of cell
turnover.
[0104] The acute pathological outcome of gamma irradiation leading
to death is different for different doses and is determined by the
failure of certain organs that define the threshold of the
organism's sensitivity to each particular dose. Thus, lethality at
lower doses occurs from bone marrow aplasia, while moderate doses
kill faster by inducing gastrointestinal (GI) syndrome. Very high
doses of radiation can cause almost instant death eliciting
neuronal degeneration.
[0105] Organisms that survive a period of acute toxicity of
radiation can suffer from long-term remote consequences that
include radiation-induced carcinogenesis and fibrosis developing in
exposed organs (e.g., kidney, liver or lungs) months and years
after irradiation.
[0106] Cellular DNA is the major target of IR causing a variety of
types of DNA damage (genotoxic stress) by direct and indirect (free
radical-based) mechanisms. All organisms maintain DNA repair system
capable of effective recovery of radiation-damaged DNA; however,
errors in the DNA repair process may lead to mutations.
[0107] Tumors are generally more sensitive to gamma radiation and
can be treated with multiple local doses that cause relatively low
damage to normal tissue. Nevertheless, in some instances, damage of
normal tissues is a limiting factor in application of gamma
radiation for cancer treatment. The use of gamma-irradiation during
cancer therapy by conventional, three-dimensional conformal or even
more focused BeamCath delivery has also dose-limiting toxicities
caused by cumulative effect of irradiation and inducing the damage
of the stem cells of rapidly renewing normal tissues, such as bone
marrow and gastrointestinal (GI) tract.
[0108] At high doses, radiation-induced lethality is associated
with so-called hematopoietic and gastrointestinal radiation
syndromes. Hematopoietic syndrome is characterized by loss of
hematopoietic cells and their progenitors making it impossible to
regenerate blood and lymphoid system. The death usually occurs as a
consequence of infection (result of immunosuppression), hemorrhage
and/or anemia. GI syndrome is caused by massive cell death in the
intestinal epithelium, predominantly in the small intestine,
followed by disintegration of intestinal wall and death from
bacteriemia and sepsis. Hematopoietic syndrome usually prevails at
the lower doses of radiation and leads to a more delayed death than
GI syndrome.
[0109] In the past, radioprotectants were typically
antioxidants--both synthetic and natural. More recently, cytokines
and growth factors have been added to the list of radioprotectants.
The mechanism of their radioprotection is considered to be a result
of a facilitating effect on regeneration of sensitive tissues.
There is no clear functional distinction between both groups of
radioprotectants, however, since some cytokines induce the
expression of cellular antioxidant proteins, such as manganese
superoxide dismutase (MnSOD) and metallothionein.
[0110] The measure of protection for a particular agent is
expressed by dose modification factor (DMF or DRF). DMF is
determined by irradiating the radioprotector treated subject and
untreated control subjects with a range of radiation doses and then
comparing the survival or some other endpoints. DMF is commonly
calculated for 30-day survival (LD50/30 drug-treated divided by
LD50/30 vehicle-treated) and quantifies the protection of the
hematopoietic system. In order to estimate gastrointestinal system
protection, LD50 and DMF are calculated for 6- or 7-day survival.
DMF values provided herein are 30-day unless indicated
otherwise.
[0111] As shown below, inducers of NF-.kappa.B possess strong
pro-survival activity at the cellular level and on the organism as
a whole. In response to super-lethal doses of radiation, inducers
of NF-.kappa.B inhibit both gastrointestinal and hematopoietic
syndromes, which are the major causes of death from acute radiation
exposure. As a result of these properties, inducers of NF-.kappa.B
may be used to treat the effects of natural radiation events and
nuclear accidents. Moreover, since inducers of NF-.kappa.B acts
through mechanisms different from all presently known
radioprotectants, they can be used in combination with other
radioprotectants, thereby, dramatically increasing the scale of
protection from ionizing radiation.
[0112] As opposed to conventional radioprotective agents (e.g.,
scavengers of free radicals), inducers of NF-.kappa.B activity may
not reduce primary radiation-mediated damage but may act against
secondary events involving active cell reaction to primary damage,
therefore complementing the existing lines of defense.
Pifithrin-alpha, a pharmacological inhibitor of p53 (a key mediator
of radiation response in mammalian cells), is an example of this
new class of radioprotectants. However, the activity of p53
inhibitors is limited to protection of the hematopoietic system and
has no protective effect in digestive tract (gastrointestinal
syndrome), therefore, reducing therapeutic value of these
compounds. Anti-apoptotic pharmaceuticals with broader range of
activity are desperately needed.
[0113] Inducers of NF-.kappa.B may be used as a radioprotective
agent to extend the range of tolerable radiation doses by
increasing radioresistance beyond the levels achievable by
currently available measures (shielding and application of existing
bioprotective agents) and drastically increase the chances of
survival, for example, in case of onboard nuclear accidents or
large-scale solar particle events. With an approximate DMF (30-day
survival) greater than 1.5, the NF-.kappa.B inducer flagellin is
more effective than any currently reported natural compound.
[0114] Inducers of NF-.kappa.B may be also useful for treating
irreplaceable cell loss caused by low-dose irradiation, for
example, in the central nervous system and reproductive organs.
Inducers of NF-.kappa.B may also be used during cancer chemotherapy
to treat the side effects associated with chemotherapy, including
alopecia.
[0115] In one embodiment, a mammal is treated for exposure to
radiation, comprising administering to the mammal a composition
comprising a therapeutically effective amount of a composition
comprising an inducer of NF-.kappa.B. The composition comprising an
inducer of NF-.kappa.B may be administered in combination with one
or more radioprotectants. The one or more radioprotectants may be
any agent that treats the effects of radiation exposure including,
but not limited to, antioxidants, free radical scavengers and
cytokines.
[0116] Inducers of NF-.kappa.B may inhibit radiation-induced
programmed cell death in response to damage in DNA and other
cellular structures; however, inducers of NF-.kappa.B may not deal
with damage at the cellular level and may not prevent mutations.
Free radicals and reactive oxygen species (ROS) are the major cause
of mutations and other intracellular damage. Antioxidants and free
radical scavengers are effective at preventing damage by free
radicals. The combination of an inducer of NF-.kappa.B and an
antioxidant or free radical scavenger may result in less extensive
injury, higher survival, and improved health for exposure.
Antioxidants and free radical scavengers that may be used in the
practice of the invention include, but are not limited to, thiols,
such as cysteine, cysteamine, glutathione and bilirubin; amifostine
(WR-2721); vitamin A; vitamin C; vitamin E; and flavonoids such as
orientin and vicenin derived from Indian holy basil (Ocimum
sanctum).
[0117] Inducers of NF-.kappa.B may also be administered in
combination with a number of cytokines and growth factors that
confer radioprotection by replenishing and/or protecting the
radiosensitive stem cell populations. Radioprotection with minimal
side effects may be achieved by the use of stem cell factor (SCF,
c-kit ligand), Flt-3 ligand, and interleukin-1 fragment IL-1b-rd.
Protection may be achieved through induction of proliferation of
stem cells (all mentioned cytokines), and prevention of their
apoptosis (SCF). The treatment allows accumulation of leukocytes
and their precursors prior to irradiation thus enabling quicker
reconstitution of the immune system after irradiation. SCF
efficiently rescues lethally irradiated mice with DMF in the range
of 1.3-1.35 and is also effective against gastrointestinal
syndrome. Flt-3 ligand also provides strong protection in mice
(70-80% 30-day survival at LD100/30, equivalent to DMF>1.2) and
rabbits.
[0118] In addition, combinations of cytokines may provide enhanced
radioprotection, such as: TPO combined with interleukin 4 (IL-4)
and/or interleukin 11 (IL-11); GM-CSF combined with IL-3; G-CSF
combined with Flt-3 ligand; 4F combination: SCF, Flt-3 ligand, TPO
and IL-3; and 5F combination: 4F with addition of SDF-1.
[0119] In addition, gastrointestinal radioprotectors may be used,
including transforming growth factor beta3 (TGFb3), interleukin 11
(IL-11), and mentioned keratinocyte growth factor (KGF). While
these radioprotectors also protect the intestine, they are likely
to synergize with flagellin or flagellin related polypeptides since
the results below show that flagellin and flagellin related
polypeptides protect endothelium, while these gastrointestinal
radioprotectors protect epithelium of GI tract.
[0120] Several factors, while not cytokines by nature, stimulate
the proliferation of immunocytes and may be used in combination
with inducers of NF-.kappa.B. For example, 5-AED (5-androstenediol)
is a steroid that stimulates the expression of cytokines and
increases resistance to bacterial and viral infections. A
subcutaneous injection of 5-AED in mice 24 h before irradiation
improved survival with DMF=1.26. Synthetic compounds, such as
ammonium tri-chloro(dioxoethylene-O,O'--) tellurate (AS-101), may
also be used to induce secretion of numerous cytokines and for
combination with inducers of NF-.kappa.B. Additional
radioprotectors include, growth hormone (GH), thrombopoietin (TPO),
interleukin 3 (IL-3), granulocyte-macrophage colony-stimulating
factor (GM-CSF), granulocyte colony-stimulating factor (G-CSF), and
stromal derived factor-1 (SDF-1).
[0121] Growth factors and cytokines may also be used to provide
protection against gastrointestinal syndrome. Keratinocyte growth
factor (KGF) promotes proliferation and differentiation in the
intestinal mucosa, and increases the post-irradiation cell survival
in the intestinal crypts. Hematopoietic cytokine and
radioprotectant SCF may also increase intestinal stem cell survival
and associated short-term organism survival.
[0122] Inducers of NF-.kappa.B may offer protection against both
gastrointestinal (GI) and hematopoietic syndromes. Since mice
exposed to 15 Gy of whole-body lethal irradiation die mostly from
GI syndrome, a composition comprising an inducer of NF-.kappa.B and
one or more inhibitors of GI syndrome may be more effective.
Inhibitors of GI syndrome that may be used in the practice of the
invention include, but are not limited to, cytokines such as SCF
and KGF.
[0123] The composition comprising an inducer of NF-.kappa.B may be
administered at any point prior to exposure to radiation including,
but not limited to, about 48 hr, 46 hr, 44 hr, 42 hr, 40 hr, 38 hr,
36 hr, 34 hr, 32 hr, 30 hr, 28 hr, 26 hr, 24 hr, 22 hr, 20 hr, 18
hr, 16 hr, 14 hr, 12 hr, 10 hr, 8 hr, 6 hr, 4 hr, 3 hr, 2 hr, or 1
hr prior to exposure. The composition comprising an inducer of
NF-.kappa.B may be administered at any point after exposure to
radiation including, but not limited to, about 1 hr, 2 hr, 3 hr, 4
hr, 6 hr, 8 hr, 10 hr, 12 hr, 14 hr, 16 hr, 18 hr, 20 hr, 22 hr, 24
hr, 26 hr, 28 hr, 30 hr, 32 hr, 34 hr, 36 hr, 38 hr, 40 hr, 42 hr,
44 hr, 46 hr, or 48 hr after exposure to radiation.
[0124] f. Sepsis
[0125] This invention also relates to a method of preventing sepsis
in a mammal comprising administering to the mammal a composition
comprising a therapeutically effective amount of an agent that
induces NF-.kappa.B activity. The agent that induces NF-.kappa.B
activity may be administered in combination with other
treatments.
[0126] Viral or bacterial infections may stimulate the innate
immune system through Toll-like receptor (TLR) ligands. Macrophages
may be protected and/or stimulated by flagellin and flagellin
related polypeptides due to the presence of TLR5 on their surface.
For example, a crucial step in the development of an anthrax
infection is death of macrophages killed from within by B.
anthracis. Protection of intestinal endothelium against various
stresses using flagellin and flagellin related polypeptides may
prevent GI cell death and also may prevent penetration of the GI
wall by infectious agent, thereby preventing GI bleeding caused by
infections such as Ebola. Other hemorrhagic viral infections may
also be prevented by rescue of endothelium and gastrointestinal
epithelium.
3. AGENT
[0127] This invention also relates to an agent that induces
NF-.kappa.B activity. The agent may be an artificially synthesized
compound or a naturally occurring compound. The agent may be a low
molecular weight compound, polypeptide or peptide, or a fragment,
analog, homolog, variant or derivative thereof.
[0128] The agent may also be an NF-.kappa.B inducing cytokine
including, but not limited to, IL2, IL6, TNF and TGF.beta.. The
agent may also be a prostaglandin. The agent may also be a growth
factor including, but not limited to, KGF and PDGF. The agent may
also be an antibody that induces NF-.kappa.B activity.
[0129] a. Flagellin
[0130] In one embodiment, the agent that induces NF-.kappa.B
activity is flagellin. As shown in the Examples below, flagellin
and flagellin related polypeptides possess strong pro-survival
activity at the cellular level and for the organism as a whole.
Interestingly, flagellin also stimulates natural killer (NK) cells
and T-lymphocytes, which are the major components of anti-tumor
immunity (Tsujimoto H, et. al., J Leukoc Biol. 2005 October;
78(4):888-97; Caron G., et. al., J Immunol. 2005 Aug. 1;
175(3):1551-7; Honko A N & Mizel S B, Immunol Res. 2005;
33(1):83-101). As a result, flagellin may be used as a
radioprotectant in cancer treatments.
[0131] The present invention is also related to flagellin related
polypeptides, such as those polypetpides described herein. As used
herein, the term "flagellin" is intended to mean a flagellin or
flagellin-related polypeptide from any source, including a variety
of Gram-positive and Gram-negative bacterial species. The amino
acid sequences of flagellin from 23 bacterial species are depicted
in FIG. 7 of U.S. Patent Publication No. 2003/0044429, the contents
of which are incorporated herein by reference. The nucleotide
sequences encoding the flagellin polypeptides listed in FIG. 7 of
U.S. 2003/0044429 are publically available at sources including the
NCBI Genbank database.
[0132] Flagellin is the major component of bacterial flagellum.
Flagellin is composed of three domains (FIG. 9). Domain 1 (D1) and
domain 2 (D2) are discontinuous and are formed when residues in the
amino terminus and carboxy terminus are juxtaposed by the formation
of a hairpin structure. The amino and carboxy terminus comprising
the D1 and D2 domains is most conserved, whereas the middle
hypervariable domain (D3) is highly variable. Studies with a
recombinant protein containing the amino D1 and D2 and carboxyl D1
and D2 separated by an Escherichia coli hinge (ND1-2/ECH/CD2)
indicate that D1 and D2 are bioactive when coupled to an ECH
element. This chimera, but not the hinge alone, induced
I.sub..kappa.B.sub..alpha. degradation, NF-.kappa.B activation, and
NO and IL-8 production in two intestinal epithelial cell lines. The
non-conserved D3 domain is on the surface of the flagellar filament
and contains the major antigenic epitopes. The potent
proinflammatory activity of flagellin may reside in the highly
conserved N and C D1 and D2 regions.
[0133] Flagellin induces NF-.kappa.B activity by binding to
Toll-like receptor 5 (TLR5). The TLR family is composed of at least
10 members and is essential in innate immune defense against
pathogens. The innate immune system recognizes pathogen-associated
molecular patterns (PAMPs) that are conserved on microbial
pathogens. TLR may recognize a conserved structure that is
particular to bacterial flagellin. The conserved structure may be
comprised of a large group of residues that are somewhat permissive
to variation in amino acid content. Smith et al., Nat Immunol.
4:1247-53 (2003) have identified 13 conserved amino acids in
flagellin that are part of the conserved structure recognized by
TLR5. The 13 conserved amino acids of flagellin important for TLR5
activity are shown in FIG. 24.
[0134] In a preferred embodiment, the flagellin is from a species
of Salmonella, a representative example of which is S.dublin
(encoded by GenBank Accession Number M84972) (SEQ ID NO: 1). In
another preferred embodiment, the flagellin related-polypeptide is
a fragment, variant, analog, homolog, or derivative of SEQ ID NO:
1, or combination thereof, that binds to TLR5 and induces
TLR5-mediated activity, such as activation of NF-.kappa.B activity.
A fragment, variant, analog, homolog, or derivative of flagellin
may be obtained by rational-based design based on the domain
structure of Flagellin and the conserved structure recognized by
TLR5.
[0135] In a more preferred embodiment, the fragment, variant,
analog, homolog, or derivative of SEQ ID NO: 1, or combination
thereof, comprises at least 10, 11, 12, or 13 of the 13 conserved
amino acids shown in FIG. 24 (positions 89, 90, 91, 95, 98, 101,
115, 422, 423, 426, 431, 436 and 452). In another more preferred
embodiment, the amino- and carboxy-terminus of the fragment,
variant, analog, homolog, or derivative of SEQ ID NO: 1, or
combination thereof, is at least 30%, 35%, 40%, 45%, 50%, 55%, 60%,
65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98%, or 99% identical to
amino acids 1-174 and 418-505 of SEQ ID NO: 1. FIG. 26 lists the
percentage identity of the amino- and carboxy-terminus of flagellin
with known TLR-5 stimulating activity, as compared to SEQ ID NO:
1.
[0136] Flagellin homologs may be a flagellin polypeptide from any
Gram-positive or Gram-negative bacterial species including, but not
limited to, the flagellin polypeptides disclosed in U.S. Pat. Pub.
2003/000044429, the contents of which are incorporated herein, and
the flagellin peptides corresponding to the Accession numbers
listed in the BLAST results shown in FIGS. 25A-D. Also
contemplated, are fragments, variants, analogs and derivatives of
flagellin homologs.
[0137] Flagellin fragments may be portions of a flagellin
polypeptide that stimulate TLR5 activity. Numerous deletional
mutants of flagellin have been made that retain at least some TLR5
stimulating activity. In addition to the deletional mutants
disclosed in the Examples herein, representative deletional mutants
include translation of GenBank Accession number D13689 missing
amino acids 185-306 or 444-492, and translation of GenBank
Accession number M84973 missing amino acids 179-415. Also
contemplated, are homologs, variants, analogs and derivatives of
flagellin fragments.
[0138] Flagellin variants include flagellin polypeptides with
transposon insertions and changes to the variable D3 domain. The D3
domain may be substituted in part, or in whole, with a hinge or
linker polypeptide that allows the D1 and D2 domains to properly
fold such that the variant stimulates TLR5 activity. Representative
examples of variant hinge elements may be found in the E. coli MukB
protein and SEQ ID NOS: 3 and 4. Also contemplated, are fragments,
homologs, analogs and derivatives of flagellin variants.
4. COMPOSITION
[0139] This invention also relates to a composition comprising a
therapeutically effective amount of an inducer of NF-.kappa.B. The
composition may be a pharmaceutical composition, which may be
produced using methods well known in the art. As described above,
the composition comprising an inducer of NF-.kappa.B may be
administered to a mammal for the treatment of conditions associated
with apoptosis including, but not limited to, exposure to
radiation, side effect from cancer treatments, stress and cell
aging. The composition may also comprise additional agents
including, but not limited to, a radioprotectant or a
chemotherapeutic drug.
[0140] a. Administration
[0141] Compositions of this invention may be administered in any
manner including, but not limited to, orally, parenterally,
sublingually, transdermally, rectally, transmucosally, topically,
via inhalation, via buccal administration, intrapleurally, or
combinations thereof. Parenteral administration includes, but is
not limited to, intravenous, intraarterial, intraperitoneal,
subcutaneous, intramuscular, intrathecal, and intraarticular.
Transmucosally administration includes, but is not limited to
intranasal. For veterinary use, the composition may be administered
as a suitably acceptable formulation in accordance with normal
veterinary practice. The veterinarian can readily determine the
dosing regimen and route of administration that is most appropriate
for a particular animal.
[0142] The composition may be administered prior to, after or
simultaneously with a stress that triggers apoptosis, or a
combination thereof. The composition may be administered from about
1 hour to about 48 hours prior to or after exposure to a stress
that triggers apoptosis.
[0143] b. Formulation
[0144] Compositions of this invention may be in the form of tablets
or lozenges formulated in a conventional manner. For example,
tablets and capsules for oral administration may contain
conventional excipients including, but not limited to, binding
agents, fillers, lubricants, disintegrants and wetting agents.
Binding agents include, but are not limited to, syrup, accacia,
gelatin, sorbitol, tragacanth, mucilage of starch and
polyvinylpyrrolidone. Fillers include, but are not limited to,
lactose, sugar, microcrystalline cellulose, maizestarch, calcium
phosphate, and sorbitol. Lubricants include, but are not limited
to, magnesium stearate, stearic acid, talc, polyethylene glycol,
and silica. Disintegrants include, but are not limited to, potato
starch and sodium starch glycollate. Wetting agents include, but
are not limited to, sodium lauryl sulfate). Tablets may be coated
according to methods well known in the art.
[0145] Compositions of this invention may also be liquid
formulations including, but not limited to, aqueous or oily
suspensions, solutions, emulsions, syrups, and elixirs. The
compositions may also be formulated as a dry product for
constitution with water or other suitable vehicle before use. Such
liquid preparations may contain additives including, but not
limited to, suspending agents, emulsifying agents, nonaqueous
vehicles and preservatives. Suspending agent include, but are not
limited to, sorbitol syrup, methyl cellulose, glucose/sugar syrup,
gelatin, hydroxyethylcellulose, carboxymethyl cellulose, aluminum
stearate gel, and hydrogenated edible fats. Emulsifying agents
include, but are not limited to, lecithin, sorbitan monooleate, and
acacia. Nonaqueous vehicles include, but are not limited to, edible
oils, almond oil, fractionated coconut oil, oily esters, propylene
glycol, and ethyl alcohol. Preservatives include, but are not
limited to, methyl or propyl p-hydroxybenzoate and sorbic acid.
[0146] Compositions of this invention may also be formulated as
suppositories, which may contain suppository bases including, but
not limited to, cocoa butter or glycerides. Compositions of this
invention may also be formulated for inhalation, which may be in a
form including, but not limited to, a solution, suspension, or
emulsion that may be administered as a dry powder or in the form of
an aerosol using a propellant, such as dichlorodifluoromethane or
trichlorofluoromethane. Compositions of this invention may also be
formulated transdermal formulations comprising aqueous or
nonaqueous vehicles including, but not limited to, creams,
ointments, lotions, pastes, medicated plaster, patch, or
membrane.
[0147] Compositions of this invention may also be formulated for
parenteral administration including, but not limited to, by
injection or continuous infusion. Formulations for injection may be
in the form of suspensions, solutions, or emulsions in oily or
aqueous vehicles, and may contain formulation agents including, but
not limited to, suspending, stabilizing, and dispersing agents. The
composition may also be provided in a powder form for
reconstitution with a suitable vehicle including, but not limited
to, sterile, pyrogen-free water.
[0148] Compositions of this invention may also be formulated as a
depot preparation, which may be administered by implantation or by
intramuscular injection. The compositions may be formulated with
suitable polymeric or hydrophobic materials (as an emulsion in an
acceptable oil, for example), ion exchange resins, or as sparingly
soluble derivatives (as a sparingly soluble salt, for example).
[0149] c. Dosage
[0150] A therapeutically effective amount of the agent required for
use in therapy varies with the nature of the condition being
treated, the length of time that induction of NF-.kappa.B activity
is desired, and the age and the condition of the patient, and is
ultimately determined by the attendant physician. In general,
however, doses employed for adult human treatment typically are in
the range of 0.001 mg/kg to about 200 mg/kg per day. The dose may
be about 1 .mu.g/kg to about 100 .mu.g/kg per day. The desired dose
may be conveniently administered in a single dose, or as multiple
doses administered at appropriate intervals, for example as two,
three, four or more subdoses per day. Multiple doses often are
desired, or required, because NF-.kappa.B activity in normal cells
may be decreased once the agent is no longer administered.
[0151] The dosage of an inducer of NF-.kappa.B may be at any dosage
including, but not limited to, about 1 .mu.g/kg, 25 .mu.g/kg, 50
.mu.g/kg, 75 .mu.g/kg, 100 .mu.g/kg, 125 .mu.g/kg, 150 .mu.g/kg,
175 .mu.g/kg, 200 .mu.g/kg, 225 .mu.g/kg, 250 .mu.g/kg, 275
.mu.g/kg, 300 .mu.g/kg, 325 .mu.g/kg, 350 .mu.g/kg, 375 .mu.g/kg,
400 .mu.g/kg, 425 .mu.g/kg, 450 .mu.g/kg, 475 .mu.g/kg, 500
.mu.g/kg, 525 .mu.g/kg, 550 .mu.g/kg, 575 .mu.g/kg, 600 .mu.g/kg,
625 .mu.g/kg, 650 .mu.g/kg, 675 .mu.g/kg, 700 .mu.g/kg, 725
.mu.g/kg, 750 .mu.g/kg, 775 .mu.g/kg, 800 .mu.g/kg, 825 .mu.g/kg,
850 .mu.g/kg, 875 .mu.g/kg, 900 .mu.g/kg, 925 .mu.g/kg, 950
.mu.g/kg, 975 .mu.g/kg or 1 mg/kg.
[0152] This invention has multiple aspects, illustrated by the
following non-limiting examples.
Example 1
P53 Deficiency Accelerated Development of GI Syndrome in Mice
[0153] The primary cause of death from ionizing radiation (IR) of
mammals depends on the radiation dose. At doses of up to 9-10 Gy,
mice die 12-20 days later, primarily from lethal bone marrow
depletion-hematopoietic (HP) syndrome. At this dose, irradiated
mice can be rescued from lethality by bone marrow transplantation.
Animals that receive >15 Gy die between 7-12 days after
treatment (before hematopoietic syndrome can kill them) from
complications of damage to the small intestine-gastrointestinal
(GI) syndrome. In both cases of HP and GI syndromes, lethal damage
of tissues starts from massive p53-dependent apoptosis. This
observation allowed us earlier to suggest that p53 could be a
determinant of radiation-induced death. Consistently, p53-deficient
mice were resistant to doses of radiation that kill through HP
syndrome, and lethality of wild type animals receiving 6-11 Gy of
gamma radiation could be reduced by temporary pharmacological
inhibition of p53 by the small molecule p53 inhibitor
pifithrin-alpha (PFT) (Komarov et al 1999). Identification of p53
as a factor sensitizing tissues to genotoxic stress was further
strengthened by demonstrating the p53 dependence of hair loss
(alopecia) occurring as a result of experimental chemotherapy or
radiation. Hence, based on previous observations, one would expect
that p53 continues to play an important role in development of
lethal GI syndrome after higher doses of IR. Surprisingly,
p53-deficiency sensitizes mice to higher doses of IR causing lethal
gastro-intestinal syndrome (FIG. 1). Continuous cell proliferation
in the crypts of p53-deficient epithelium after IR correlates with
accelerated death of damaged cells of crypt and rapid destruction
of villi. p53 prolongs survival by inducing growth arrest in the
crypts of small intestine thereby preserving integrity of the guts
(FIG. 2). Thus, proapoptotic function of p53 promotes hematopoietic
syndrome while its growth arrest function delays development of
gastro-intestinal syndrome.
[0154] The dynamics of cell population in the small intestine have
been analyzed in great detail. Cell proliferation in the epithelia
of the gut is limited to the crypts where stem cells and early
proliferating progenitors are located. After a couple of cell
divisions, already differentiated descendants of crypt stem cells
move up the villi to be shed at the villar tip. In the small
intestine of the mouse, the entire "trip" of the cell (the
proliferative compartment to the tip of the villus) normally takes
between 3 and 5 days. Although reaction of the small intestine to
gamma radiation has been well examined at a pathomorphological
level, it still remains unclear what is the exact cause of GI
lethality, including the primary event. Death may occur as a direct
consequence of the damage of epithelial crypt cells and followed
denudation of villi leading to fluid and electrolyte imbalance,
bacteremia and endotoxemia. Besides inflammation and stromal
responses, endothelial dysfunctions seem to be the important
factors contributing to lethality. In summary, pharmacological
suppression of p53 that was shown to be so effective as a method of
protection from IR-induced HP syndrome, is useless (if not
detrimental) against GI syndrome. Therefore, it is necessary to
develop alternative approaches to radioprotection of epithelium of
small intestine that will rely on another mechanism, such as, for
example, activation of NF-.kappa.B and subsequent inhibition of
cell death.
Example 2
Flagellin Delays Mouse Death Caused by IR-Induced GI Syndrome
[0155] Whole body irradiation of mice with 15 Gy gamma radiation
caused death within 8 days from GI syndrome providing a
conventional model of radiation induced damage of GI tract. To test
whether flagellin was capable of protecting GI epithelium from IR,
we tested the effect of i.v.-injected flagellin on the dynamics of
mouse lethality after 15 Gy of radiation. We used a range of
flagellin doses, all of which were significantly lower than the
highest tolerable dose known from literature (300 .mu.g/mouse).
Irradiation was done 4 hours post treatment. The results of a
representative experiment are shown in FIG. 4. As expected, control
irradiated mice (that received PBS i.v.) died between 5 and 8 days
post-treatment. Animals that received flagellin lived significantly
longer; the extension of animal survival correlated with the dose
of flagellin. Pathomorphological analysis of the small intestine on
day 7 after irradiation revealed dramatic differences between
flagellin-treated and control groups (FIG. 5). Intravenous,
intraperitoneal and subcutaneous delivery of 0.2 mg/kg of flagellin
followed by 13 Gy irradiation afforded similar degree of
protection, leading to 85-90% 30-day survival of mice (data not
shown). While not being bound by theory, flagellin may be a
radioprotectant due to its activation of NF-.kappa.B, which
presumably acts as an inhibitor of apoptotic death.
Example 3
Flagellin Rescues Mice from Lethal IR-Induced Hematopoietic
Syndrome
[0156] We next tested whether flagellin had an effect on mouse
IR-induced death from HP syndrome that was experimentally induced
by lower radiation doses (usually up to 11 Gy) that are incapable
of causing lethal GI toxicity. The experiments were done similarly
to the above-described ones (FIGS. 14 and 15), however, instead of
15Gy, mice received 10Gy, the dose that caused 100% killing in
control group by day 13 (FIG. 6). Flagellin-treated group (5
.mu.g/mouse) showed complete protection from this dose of IR
surprisingly indicating that flagellin-mediated radioprotection
acts not only against GI but also against HP IR-induced
syndromes.
Example 4
Time Dependence on the Protective Effect of Flagellin
[0157] Mice were next administered flagellin at different times
prior to 13Gy of gamma irradiation. The results of one of such
experiments is shown in FIG. 7. The obtained results show that
flagellin is effective as a radioprotectant from 13Gy if injected
1-4 h before treatment.
[0158] In order to further estimate the dependence of
radioprotective activity of flagellin on the time of treatment,
mice were injected at several time points relative to the moment of
gamma-irradiation. Experiments were performed essentially as
explained above, using intraperitoneal injection of 5 .mu.g/mouse
(0.2 mg/kg) of full-length flagellin or, for control mice, 5
.mu.g/mouse (0.2 mg/kg) of bacterial RNA polymerase. The
experiments were performed using the NIH-Swiss mouse strain. The
results show that flagellin provides .about.90% survival after 13
Gy irradiation if injected at 1 or 2 hours before treatment (FIG.
7). Only -1 h graph is shown for clarity, however, both timepoints
(-1 and -2 h) provide similar degree and dynamics of survival. The
4 h timepoint shows somewhat lower protection. Flagellin injected
24 hours before irradiation had no protective effect against 13 Gy
induced death.
[0159] Interestingly, administration of flagellin 24 hours before
10 Gy gamma-irradiation provided 100% protection. While 13 Gy
irradiation in mice primarily induces death from GI syndrome, 10
Gy-induced death is mostly mediated by hematopoietic syndrome.
Accordingly, such long-term protection from 10 Gy irradiation may
be mediated by enhanced proliferation or survival of hematopoietic
stem cell induced by flagellin and/or long-living secondary
cytokines.
Example 5
Determination of LD.sub.50/30, LD.sub.50/7 and DMF for
Flagellin
[0160] We next obtained an estimate of radiation dose-dependent
protection for flagellin. As shown above (FIG. 7), treatment with
flagellin was sufficient for 100% protection against 10 Gy
gamma-irradiation (this dose causes death from hematopoietic
syndrome) and 90% 30-day survival at 13 Gy (both hematopoietic and
GI syndromes). Experiments were performed as described above, using
flagellin 5 .mu.g/mouse (0.2 mg/kg), intraperitoneally injected 1 h
before irradiation.
[0161] At 15 Gy, however, 100% 7-day survival was followed by
delayed death after 13 days (0% 30-day survival), while control
group had fully succumbed to GI syndrome by day 7 (FIG. 8). The
kinetics of the flagellin-treated group mortality after 15 Gy
irradiation is reminiscent of such of control group at 10 Gy,
hinting at death caused by hematopoietic syndrome. The results
provide an estimate of flagellin LD.sub.50/30 around 13.5-14 Gy and
DMF.sub.30 of about 1.75-1.8. This degree of radioprotection is
significantly higher than any reported for a natural compound.
Example 6
Rational Design and Cloning of Flagellin Fragments
[0162] Salmonella flagellin, encoded by the FliC gene (SEQ ID NO:
2), is a strong activator of pro-survival NF-.kappa.B pathway. This
is the most likely mechanism of its radioprotective action.
Previous studies have shown that binding of flagellin to Toll-like
receptor 5 (TLR5) on the cell surface is a necessary step that
triggers activation of NF-.kappa.B. The domain structure of
Salmonella flagellin is described in sufficient detail in the
literature (FIG. 9). Moreover, previous structural studies of
flagellin-TLR5 complex (FIG. 10) provide the ability to distinguish
between domains that are essential or dispensable for binding and
thus NF-.kappa.B activation. Protein minimization may provide
reduced immune response after repeated administration of
flagellin-related polypeptides. This may be achieved, in part, due
to lower immunogenicity of low molecular weight proteins and
smaller number of immunogenic epitopes available.
[0163] The domains needed for TLR5 binding may be located
exclusively in the evolutionary conserved N- and C-terminal domains
of bacterial flagellins. The hypervariable domain (amino acids
178-402) does not come into close contact with TLR5. As was
demonstrated previously, replacement of this domain with a flexible
linker peptide did not disrupt binding to TLR5. In addition,
N-terminal and C-terminal coiled-coil polymerization domains (amino
acids 1-55, 456-505) do not bind to TLR5 and likely are dispensable
(see modified N and C termini B and B', respectively, as shown
herein). Also, another fragment N-terminus lacking all domains but
major N-terminal .alpha.-helix that actually binds TLR5 (amino
acids 56-100) may be sufficient for binding.
[0164] Accordingly, three types of N-termini (A, B, C) and two
types of C-termini (A',B'), connected with a flexible linker (SEQ
ID NOS: 3 and 4) taken from pGEX-KG cloning vector (SEQ ID NOS: 5
and 6) were combined into expression constructs to produce several
possible flagellin fragments (Table 1). In addition, constructs
representing separate N-termini (A, B, C) and
glutathione-S-transferase (GST)-fusions of C-termini (GST-A',
GST-B') were prepared. All constructs were cloned in the pRSETb
bacterial expression vector and 6.times.His-tagged proteins were
produced and purified for further experiments (FIG. 11).
TABLE-US-00001 TABLE 1 Name Structure DNA Protein AA'
(1-177)-Linker-(402-505) SEQ ID NO: 7 SEQ ID NO: 8 AB'
(1-177)-Linker-(402-450) SEQ ID NO: 9 SEQ ID NO: 10 BA'
(56-177)-Linker-(402-505) SEQ ID NO: 11 SEQ ID NO: 12 BB'
(56-177)-Linker-(402-450) SEQ ID NO: 13 SEQ ID NO: 14 CA'
(56-100)-Linker-(402-505) SEQ ID NO: 15 SEQ ID NO: 16 CB'
(56-100)-Linker-(402-450) SEQ ID NO: 17 SEQ ID NO: 18 A (1-177) SEQ
ID NO: 19 SEQ ID NO: 20 B (56-177) SEQ ID NO: 21 SEQ ID NO: 22 C
(56-100) SEQ ID NO: 23 SEQ ID NO: 24 GST- GST-Linker-(402-505) SEQ
ID NO: 25 SEQ ID NO: 26 A' GST- GST-Linker-(402-450) SEQ ID NO: 27
SEQ ID NO: 28 B'
Example 7
Selection of Biologically Active Flagellin Fragments
[0165] Since the radioprotective activities of flagellin appear to
be NF-.kappa.B dependent, we tested the ability of the flagellin
fragments to induce NF-.kappa.B translocation to the nucleus and
binding to its target sites in DNA. This was tested by
electrophoretic mobility shift assay (EMSA) using nuclear extracts
from flagellin- and fragment-treated A549 lung cancer cells and
labeled synthetic NF-.kappa.B binding kB oligonucleotide.
[0166] Only flagellin itself and fragments AA', AB', and BA' were
capable of inducing NF-.kappa.B translocation (FIG. 12). The level
of translocation is comparable for flagellin and fragments AA',
AB', and BA'. The hypervariable domain does not appear to be
necessary for NF-.kappa.B translocation, while the presence of at
least one polymerization domain, N- or C-terminal, is required.
Mixtures of the N- and C-terminal fragments (A+A', A+B') were
inactive.
[0167] While translocation of NF-.kappa.B to the nucleus is a
crucial step in induction of NF-.kappa.B-regulated inhibitors of
apoptosis, it is not sufficient in itself. To directly test the
ability of selected fragments to induce expression of
NF-.kappa.B-regulated genes, we performed reporter assay
experiments. Flagellin and the AA', BB', A' and B' fragments were
used for treatment of H116 human colon cancer cells carrying
luciferase gene under a NF-.kappa.B-responsive promoter. The
reporter construct contained three NF-.kappa.B-binding sites from
the E-selectin promoter combined with a Hsp70 minimal promoter that
is routinely used for the detection of NF-.kappa.B status of cells.
Luciferase activity was measured in cell lysates six hours after
addition of flagellin or its truncated fragments into the medium.
TNF was used as positive control. The results of a representative
experiment are shown in FIG. 13 and indicates that flagellin and
fragment AA' are capable of NF-.kappa.B activation, whereas
fragments BB', GST-A' and GST-B' are not.
Example 8
Further Optimization of Flagellin Fragments
[0168] We further minimized the AA' flagellin fragment by producing
additional fragments through stepwise removal of peptide fragments
from its N-terminal half (Table 2). Electrophoretic mobility shift
assays were performed as described above using nuclear extracts
from flagellin- and fragment-treated HT29 human colon cancer cells
and labeled synthetic NF-.kappa.B binding .kappa.B oligonucleotide.
NF-.kappa.B binding activity in HT29 cells was stimulated with TNFa
(10 ng/ml), or flagellin fragments (1 mg/ml) for 15 min. As shown
in FIG. 14, fragments AA'n1-170, AA'n54-170, AA'n1-163 and
AA'n54-163 each induce NF-.kappa.B translocation, with levels
comparable to that of flagellin for AA'n1-170, AA'n54-170 and
AA'n1-163.
TABLE-US-00002 TABLE 2 Name Structure DNA Protein AA'n54-177
(54-177)-Linker- SEQ ID NO: 11 SEQ ID NO: 12 (402-505) AA'n1-170
(1-170)-Linker- SEQ ID NO: 29 SEQ ID NO: 30 (402-505) AA'n54-170
(54-170)-Linker- SEQ ID NO: 31 SEQ ID NO: 32 (402-505) AA'n1-163
(1-163)-Linker- SEQ ID NO: 33 SEQ ID NO: 34 (402-505) AA'n54-163
(54-163)-Linker- SEQ ID NO: 35 SEQ ID NO: 36 (402-505)
[0169] In order to study the ability of the AA' fragments to
directly activate NF-.kappa.B-regulated transcription, we performed
reporter assay experiments as described above for a wide range of
concentrations of flagellin, original AA' and AA'-derived
fragments. As shown above, AA' and AA'n1-170 induce
NF-.kappa.B-regulated transcription at the level comparable to such
of flagellin over the studied range of concentrations (FIG. 15,
left). AA' and AA'n1-170 are more active than flagellin in the very
low concentration range (FIG. 15, right), possibly due to their
reduced molecular weight. The results with fragment AA'n1-170 show
that AA'-derived flagellin fragments may be made with a portion of
the N-terminal domain removed without significant loss of activity
and may be used as effective radioprotectors.
[0170] The above experiments (EMSA and reporter activation assay)
were repeated with flagellin and AA' fragments subjected to 30
minutes boiling and renaturation before being applied to cells. The
results were comparable to those obtained without boiling (data not
shown). This shows that the observed differences in flagellin
fragment activity may not be caused by changes in protein
stability.
Example 9
In Vivo Comparison of Radioprotective Properties of Flagellin and
Flagellin Fragments
[0171] As shown above, full-length flagellin provides protection
from both hematopoietic and gastrointestinal syndromes. The
radioprotective potential of flagellin fragments was similarly
tested after gamma-irradiation with 11 Gy (dose that induces
hematopoietic syndrome-associated mortality in mice) or 14 Gy (dose
that causes death from GI syndrome). Mice (10 animals per group)
were injected subcutaneously with 5.0 .mu.g/mouse (0.2 mg/kg) of
flagellin or its fragments, AA' or BB', and gamma-irradiated 1 hour
later.
[0172] The degree of radioprotection displayed by the AA' fragment
is at least comparable to full-length flagellin (FIG. 16). Both the
AA' fragment and full-length flagellin showed 100% 30-day survival
for mice irradiated with 11 Gy and 14 Gy. Meanwhile, 0% of mice
injected with the BB' fragment survived to 30 days. This is
expected since the BB' fragment is incapable of inducing
NF-.kappa.B in vitro. These results show that significant reduction
in the size of flagellin (about 40% removed) may be achieved
without a decrease in the degree of radioprotection. In addition,
the ability to predict radioprotective potential from results of in
vitro NF-.kappa.B activation is confirmed.
Example 10
Identification of Cellular Targets of Flagellin-Mediated
Radioprotection
[0173] Tissue samples of intestinal mucosa were taken 5 days after
14 Gy irradiation from mice pretreated with flagellin and control
mice. Control animals were treated with 5.0 .mu.g/mouse (0.2 mg/kg)
bacterial RNA-polymerase. Pathomorphological analysis of the small
intestine reveals reduction of the size of crypts and villi and a
number of the cells with condensed apoptotic nuclei in control
mouse and near-normal morphology in the treated mouse (data not
shown). Tissue samples (small intestine and skin from the back)
were also obtained from mice treated with the AA' fragment. The
results shown in FIG. 17 are areas of typical morphology observed
over a set of at least 3 mice. After treatment with flagellin and
the AA' fragment, mice demonstrated near-normal intestinal
morphology with preservation of the villi/crypt structure (FIG.
17A).
[0174] In addition to purely histological observation of cell death
and survival, we performed more specialized tests of apoptotic cell
death in intestinal tissue using a TUNEL assay, which detects
apoptosis-associated DNA fragmentation. These experiments allowed
us to define with a high degree of probability cellular populations
that are depleted by radiation and rescued by flagellin fragment
treatment. The earliest radiation-induced alterations detectable in
the small intestine after treatment with IR is apoptosis occurring
in vascular endothelial cells of villi, which is seen as early as 5
hours post treatment (FIG. 17B). This apoptosis, which is believed
to be critical for radiosensitivity of the small intestine, was
almost completely blocked in the mice pretreated with the AA'
fragment (FIG. 17B, bottom panel). Degeneration of villi and
crypts, occurring within the next several days post treatment and
greatly suppressed in AA' fragment-treated animals, comes as a
consequence of injury of blood vessels. Effective protection of
endothelial cells of the small intestine by the flagellin fragment
may be due to expression of TLR5 in these cells.
[0175] Remarkably, the AA' fragment and flagellin also prevented
the radiation-induced disappearance of sebaceous glands located at
the base of skin hair follicles (FIG. 27C). These results further
confirm the suitability of AA' fragment for radioprotection and for
the prevention of radiation-induced hair loss.
Example 11
Protection from Supralethal Radiation
[0176] In order to explore the limits of radioprotection provided
by the AA' fragment, we irradiated mice with 17 Gy and 20 Gy single
doses of total body gamma-radiation. The experiment was performed
as described above using inactive flagellin fragment (CB) as a
negative control.
[0177] As expected, we observed a 100% mortality in both groups at
17 and 20 Gy (FIG. 18). However, death was significantly delayed in
both cases by administration of the AA' fragment. Most remarkably,
the kinetics of death at 17 Gy in control mice conform to GI
syndrome (6-7 day mortality), while death of mice treated with the
AA' fragment appear to be mediated by hematopoietic syndrome (10-15
day mortality). This shows that flagellin and flagellin fragments
may protect against the GI syndrome at doses as high as 17 Gy. In
addition, this shows that even further radioprotection may be
obtained by flagellin and flagellin fragments combined with
hematopoietic radioprotectors.
Example 12
Immunogenicity and Repetitive Administration Studies
[0178] Overall immunogenicity of a protein may determines its
suitability for repeated use. Antibodies generated by immune system
are capable of reducing the therapeutic activity of the protein and
also may induce anaphylactic reaction upon second exposure if IgE
antibodies are produced against the protein. Thus, any reduction in
the amount and variety of antibodies compared to full-length
flagellin is an improvement. Accordingly, after repeated
introduction of flagellin or its fragments we monitored; a)
efficiency of radioprotection afforded at second exposure; b) local
and general allergic reactions; and c) antibody titer.
[0179] We tested the ability of AA' to protect mice that were
exposed to it. A group of 20 NIH-Swiss mice were subcutaneously
injected with 5 .mu.g/mouse (0.2 mg/kg) of AA'. A second injection
of a equal dose of AA' was administered after 21 (10 mice) and 28
days (another 10 mice), with the time elapsed being sufficient for
formation of antibodies. The second injection of AA' was followed
by 13 Gy of whole-body gamma irradiation (1 h post-injection). 100%
30-day survival was observed in both groups, as it was observed
with mice that had no previous exposure to AA' (data not shown).
These results show that activity of AA' is not diminished over
long-term repeated administration and reaffirm its potential for
multiple-use applications. Also, no local allergic reaction or
anaphylaxis was observed either with flagellin or AA'.
[0180] We also performed an ELISA determination of antibody titers
in order to quantify the effect that AA' has on the immune status
of the organism. 96-well plates were coated with flagellin or AA',
20 mg/ml, 50 ml/well, and incubated overnight at +4.degree. C.
Blood serum samples collected from mice were added to the wells in
several dilutions and incubated overnight followed by 6 hrs
reaction with secondary goat anti-mouse IgG HPO-conjugate
antibodies. Measurements were performed using a spectrophotometer
with a 414 nm filter. The antibody titers determined for individual
mice and average titers are shown in FIG. 19 and FIG. 20.
[0181] AA' induces far lower antibody levels in mice (FIG. 19), on
the order of 0.8 mg/ml serum at 21 day and about 10% more at 28
days. Flagellin, on another hand (FIG. 20), induces a high titer of
antibodies, around 20 mg/ml, at both 21 and 28 days. Overall, this
shows that removal of the hypervariable domain sharply reduces the
immunogenicity of AA' compared to the original protein
(approximately 25.times.). FIG. 19 also shows that the majority of
AA'-specific antibodies are capable of recognizing flagellin. This
confirms that the rational design of AA' does not produce a sizable
number of new immunogenic epitopes while removing >95% of the
immunogenicity of the original protein.
Example 13
Acute Toxicity Studies of Flagellin and AA'
[0182] The lethal dose of Salmonella flagellin is between 1 mg/kg
(systemic inflammation) and 10 mg/kg (100% lethality). We
subcutaneously administered increasing doses of AA' to mice (4 mice
per dose group) at 0.5, 1, 2, 4 and 8 mg/kg. Due to the lower
(.about.60%) molecular weight, 8 mg/kg of AA' correspond to a
molar-equivalent dose of 13.3 mg/kg of flagellin. Several days
after administration at all doses, no visible detrimental effects
were observed, such as mortality, morbidity or signs of systemic
inflammation such as reduced activity and fever. This shows that
the pro-inflammatory effect of AA' is negligible compared to
full-length flagellin, especially considering that AA' provides an
efficient radioprotection at 0.2 mg/kg. The reduced toxicity may be
sue to the absence of the central pro-inflammatory domain in the
AA' fragment.
Example 14
Protection from Fractioned Irradiation by AA'
[0183] Repetitive irradiation within a short period of time may be
common, for example, in space radiation events and in clinical
radiotherapy regimens. We tested the ability of the AA' flagellin
fragment to protect mice from sub-lethal (4 treatments of 3 Gy) and
100% lethal (4 treatments of 4 Gy) regimens of fractionated
gamma-irradiation. Fragment AA' or saline buffer was given to
NIH-Swiss female mice before every irradiation (once a day for 4
days). AA' was administered as described above for single-dose
irradiation (5 .mu.g/mouse, given subcutaneously 1 h before
irradiation).
[0184] The results in FIG. 21 show that AA' provides significant
protection against repetitive doses of radiation received within a
short timeframe. The cumulative dose of fractionated radiation that
is still compatible with 100% 30-day survival after AA' treatment
is comparable to such obtained in single-dose irradiation
scenarios.
Example 15
AA' Protects Normal Tissues without Compromising the Anti-Tumor
Therapeutic Effect of Radiation
[0185] The ultimate test of a potential radioprotective agent in
cancer treatment is tumor selectivity, its ability to protect
normal tissues while providing no or little protection to the
tumor. We injected 10 NIH-Swiss mice subcutaneously, in both flanks
(20 tumors total), with 2.times.10.sup.6 cells of syngeneic sarcoma
cell line model (NIH3T3-derived and spontaneously transformed
sarcoma with p53 inactivated by dominant negative inhibitor GSE56).
When tumors reached the size of 5-7 mm in diameter (day 5), the
mice were injected subcutaneously with 0.2 mg/kg of AA' or saline
vehicle and irradiated 1 hours later with 4 Gy of total-body
.gamma.-irradiation (3.times.4.3 Gy=12.9 Gy total dose). Injections
and irradiations were done at days 5, 6 and 7.
[0186] As the results show in FIG. 11, AA' enhanced the
radiation-induced shrinkage of tumors. By day 18, all the
irradiated tumor-bearing mice died from acute radiation toxicity
whereas 100% of mice that obtained both radiotherapy and AA' were
both cured and survived the treatment. Similar result was obtained
with another syngeneic tumor model--B16 melanoma cells (FIG. 11,
right panel). Surprisingly, even in unirradiated mice, AA'
administration caused a decrease in the growth rate of tumors. This
may be due to AA'-induced immunostimulating, which is known to be
caused by other ligands of Toll-like receptors. These results
indicate that AA' increases the tolerance of mice to radiation with
no effect on the radiosensitivity of two types of tumors, thus
opening the possibility of combining radiotherapy with AA' to
improve treatment outcome.
Example 16
Radioprotective Mechanisms of AA' and LPS are Different
[0187] Lipopolysaccharide of gram-negative bacteria (LPS) is a
ligand of another Toll-like receptor, TLR4. LPS is a strong inducer
of NF-.kappa.B and a subsequent cascade of cytokines. LPS is known
as a radioprotective compound, but its high toxicity makes its use
unfeasible (radioprotective dose is very close to the lethal dose).
One of the major mechanisms underlying the radioprotection by LPS
is the activation of cyclooxygenase 2 (COX-2) that, in turn, drives
the synthesis of GI-protective prostaglandins. The possibility that
radioprotection by TLR5 also relies on COX-2 activity was tested by
administering s.c. LPS (2 mg/kg), AA' (0.2 mg/kg') or vehicle 1 hr
before irradiation of NIH-Swiss mice in combination with i.p
injection of 1 mg/kg of NS398, a synthetic COX-2 inhibitor, or the
corresponding vehicle. The mice were then treated with 13 Gy of
total-body .gamma.-irradiation. NS398 completely abolished
LPS-mediated radioprotection but not the radioprotection of AA'
(FIG. 12). This result shows that AA' does not significantly rely
on COX-2 for its activity and induces radioprotection by a
mechanism different from the mechanism of LPS-mediated
protection.
Example 17
AA' Protects Multiple Mouse Strains
[0188] We have extensively confirmed that AA' protects NIH-Swiss
and ICR mice from radiation. To confirm that the radioprotection
activity of AA' is not confined to a few mouse strains, several
additional strains of mice with dissimilar origins were tested for
protection by AA': 129/Sv, DBA/2 (relatively radioresistant),
Balb/c (relatively radiosensitive) and Balb/c.times.DBA/2 F1 hybrid
CD2F1. Experimental groups were injected with 0.2 mg/kg AA' 30
minutes before irradiation, while control groups were injected with
vehicle (PBS).
[0189] All groups of mice (8-10 mice each, 8-12 week old females)
were exposed to 10 Gy of single-dose, whole-body gamma-irradiation.
Survival of mice at days 10 and 30 is shown. The results are shown
in FIG. 27 as a cone graph. At 10 days, only Balb/c mice display
mortality, which is drastically reduced by AA' administration (0%
vs. 100% survival). At day 30, all tested strains display improved
survival (0-25% vs. 50-100%) after AA' administration.
Example 18
Pharmacokinetics of AA'
[0190] Pharmacokinetic parameters (effective concentration and the
duration of drug the presence in the organism) may be important for
route, dose and time of drug administration. The pharmacokinetics
of CBLB502 (AA') were thus tested for four common routes of
injection: intravenous (i.v.), subcutaneous (s.c.), intraperitoneal
(i.p.) or intramuscular (i.m.). A radioprotective dose of CBLB502
(AA'), 0.2 mg/kg, was injected in 12-15 week old ICR mice and
plasma samples were collected at the specified times after
injection (at least 3 mice/point). The levels of CBLB502 in plasma
were measured by sandwich ELISA using known concentrations of
CBLB502 spiked in the control ICR plasma for calibration. The
results are shown in FIG. 28 and FIG. 29.
[0191] The results show that the highest levels and longest
persistence of CBLB502 in plasma are provided by intramuscular or
intraperitoneal injection. After intramuscular injection,
significant (>5 ng/ml) levels of CBLB502 are observed in mouse
plasma >3 hours. Intravenous injection leads to a more rapid
disappearance of CBLB502 from the bloodstream.
Example 19
Influence of AA' on Gamma-Irradiation Induced Cell Death and Growth
Inhibition in A549 Cells
[0192] The A549 human lung adenocarcinoma cell line is reported to
respond to flagellin by activation of NF-.kappa.B DNA-binding
activity (Tallant T., et. al., BMC Microbiol. 2004 Aug. 23; 4:33).
We decided to check whether this activation translates in the
protection of cells from .gamma.-IR in cell growth inhibition
assay.
[0193] Tumor cells were seeded in wells of three 96-well plates in
3 different densities (0.5.times.10.sup.4, 1.times.10.sup.4 and
2.times.10.sup.4 cells/well, producing single-cell, spare or
semi-contact layer). After cells had attached to plastic, CBLB502
(2 .mu.g/ml) was added to the wells of non-irradiated cells, or 15
min prior to 7 Gy or 10 Gy of gamma-irradiation. Control wells
received equal volume of vehicle (PBS). All points were done in
quadruplicate. 72 hours after irradiation, medium was replaced with
methylene blue in 50%-methanol and the relative numbers of viable
cells in wells were measured using spectrophotometer at 650 nm. The
results are shown in FIG. 30. This experiment was also repeated
with fixed dose of 1.times.10.sup.4 A549 cells/well, CBLB502 was
added 1 hour before 5, 10 or 15 Gy of gamma-irradiation (data not
shown). We observed a similar effect of flagellin in all tested
experiment conditions.
[0194] Gamma-irradiation induced a dose-dependent reduction in the
number of A549 cells plated at all three densities (up to 60% as
compared to non-irradiated control wells). CBLB502 had no or slight
effect on cell numbers, with or without gamma-irradiation. This
indicates that tumor cells are not significantly protected by
CBLB502 (AA') from radiation. This effect may be due to tumor cells
having constitutively active NF-.kappa.B pathway or some other
mechanism.
Example 20
Influence Of AA' On Gamma-Irradiation Induced Cell Death And Growth
Inhibition In Multiple Cell Lines
[0195] Based on the results using A549 cells, several additional
tumor cell lines (human melanoma Mel-7 and Mel-29, colon cancer
HCT116, lung cancer HT1080), immortalized kidney epithelial cells
(NKE) and normal mouse aortal endothelial cells (MAEC)) were tested
in growth inhibition assay after 10 and 15 Gy of gamma-irradiation,
as compared with intact control, with or without pretreatment with
CBLB502. Cells were seeded in 96-well plates night before the
treatments. CBLB502 (2 .mu.g/ml) was added to the wells 4 hrs, 1 hr
or 10 min before irradiation (all points were done in
quadruplicate). 48 hours later, methylene blue staining was
performed to determine the relative amount of the viable cells in
the wells. All three time-points had shown the same effect (results
for CBLB502 added 1 hr before irradiation are shown in FIG. 31).
The percent of growth inhibition was calculated from the OD650 in
control non-irradiated wells, taken as 0% inhibition.
[0196] Both human melanoma cell lines and MAEC cells were rather
resistant to gamma-irradiation and showed only slight (<20%)
growth inhibition after both 10 and 15 Gy comparing with intact
cells (0 Gy). NKE, HT1080 and HCT116 cells showed up to 40% of
growth inhibition after gamma-irradiation. Remarkably, CBLB502 had
no or only a slight inhibitory effect on tumor cell growth,
irradiated or not. The experiment was repeated twice. In addition,
similar results were obtained on tested lung adenocarcinoma H1299
and prostate cancer CWR22 (data not shown). This indicates that
there is no significant protection provided by CBLB502 to the tumor
cell lines against radiation-induced cell death.
Example 21
Influence of Irradiation and AA' on BrdU Incorporation in Small
Intestinal Crypts
[0197] Besides a direct inhibition of apoptosis, temporary halt of
proliferation followed by repair may be an alternative mechanism of
radioprotection, and has been described for other radioprotectors
such as TGF-.beta.3 (Booth D., et. al., Int J Cancer. 2000 Apr. 1;
86(1):53-9). Accordingly, we decided to examine the possible
influence of CBLB502 (AA') on the proliferative activity of the
cells in small intestine (with and without irradiation) during the
first hours after its administration (FIG. 32). CBLB502 or PBS was
injected i.p. in mice, followed after 30 min by 15 Gy irradiation
(if used). 2 hr after injection (1.5 hr after irradiation if it was
applied), BrdU was injected intraperitoneally. Samples of small
intestine were obtained after additional 1.5 hours.
[0198] Without irradiation, BrdU was incorporated at high levels in
the nuclei of cells in the intestinal crypts of untreated NIH-Swiss
mice (FIG. 32, top left), whereas DNA synthesis (as measured by
BrdU incorporation) was nearly undetectable in the crypts of
CBLB502-treated mice (FIG. 32, top right). In vehicle-treated
irradiated mice, the incorporation of BrdU was lower than in
control mice. Importantly, the level of BrdU incorporation was
strongly reduced by CBLB502, possibly indicating quick (S phase)
growth arrest, as opposed to later (G2 phase) irradiation-induced
growth arrest. Therefore, cytostatic activity of CBLB502 or
flagellin may be an additional mechanism of radioprotection of
small intestine.
Example 22
Duration of AA'-Mediated Growth Arrest and Reduced BrdU
Incorporation
[0199] We next determined the duration of the CBLB502-induced
growth arrest in small intestine. CBLB502 or PBS was injected i.p.
in mice, BrdU was injected 1 or 4 hours later and samples of small
intestine were obtained after additional 1.5 hours from several
mice (samples from three mice are shown) (FIG. 33).
[0200] Incorporation of BrdU in intestine was reduced as compared
to control if BrdU was injected after 1 hour (as it was shown in
the previous experiment where BrdU was injected after 2 hr).
NIH-Swiss, ICR and Balb/c mice displayed a similar degree of
CBLB502-mediated block of BrdU incorporation (Balb/c samples are
shown in FIG. 33). If BrdU was injected 4 hr after injection of
CBLB502, the levels of incorporation/DNA synthesis were even higher
than in control. This indicates that inhibition of intestinal stem
cell proliferation by CBLB502 may be temporary and may be quickly
resolved (by 4 hours), followed by a period of increased
proliferation (possibly due to the partial synchronization of
cells).
Example 23
Influence of AA' on BrdU Incorporation in Colonic Crypts
[0201] The colon is much less radiosensitive than small intestine.
To further examine the relationship between reduced proliferation
in the small intestine and radioprotection, we determined the
effect of CBLB502 on BrdU incorporation in the colon. CBLB502 or
PBS was injected i.p. in mice, BrdU was injected 1 hour later and
samples of small intestine were obtained after additional 1.5 hours
(FIG. 34).
[0202] Unlike in the small intestine, CBLB502 has no effect on BrdU
incorporation in colon. This is surprising since TLR5 is plentiful
in both organs. The difference in effects may be due to the higher
amount of symbiotic bacteria in the colon, which may mask the
effect of additional TLR5 signaling induced by CBLB502.
Example 24
Comparison of Radioprotective Potential by Route of
Administration
[0203] We next tested radioprotection provided by FliC flagellin
administered via several routes: intravenous (i.v.),
intraperitoneal (i.p.), intramuscular (i.m.), subcutaneous (s.c.)
and gavage. For parenteral (non-gavage) routes, mice were injected
with 0.2 mg/kg of FliC flagellin dissolved in PBS or vehicle,
followed 1 hr later by 13 Gy irradiation. In gavage delivery
experiment, 5 mice were given to swallow an increased dose (50
.mu.g) of FliC in 50 .mu.l of PBS 1 h before 13 Gy
gamma-irradiation. Both experiments were done in 8-10 week old
female NIH-Swiss mice, 5-10 mice/group.
[0204] All tested routes besides gavage afforded similar degree of
protection, leading to 85-90% 30-day survival of mice (data not
shown). No protection against radiation was provided by gavage
delivery, which may be due to digestion of the protein by the
gastrointestinal environment. In addition, flagellin receptor,
TLR5, is absent on the luminal side of intestinal epithelium that
is exposed to intestinal contents (Gewirtz A T., et. al., J
Immunol. 2001 Aug. 15; 167(4):1882-5)
Example 25
Effect of AA' on the Morphology of Small Intestine
[0205] Flagellin (and CBLB502) may induce NF-.kappa.B activity via
binding to TLR5. Accordingly, CBLB502-mediated radioprotection may
be dependent on the presence and activity of TLR5. MOLF/Ei mice are
a known natural model of TLR5 deficiency (Sebastiani G., et. al.,
Genomics. 2000 Mar. 15; 64(3):230-40). To verify that
CBLB502-mediated radioprotection is indeed TLR5-dependent, we
tested the protection of small intestine from radiation by CBLB502
in MOLF/Ei and NIH-Swiss mice (FIG. 35). Both strains of mice were
given 0.2 mg/kg CBLB502 (AA') or PBS 0.5 hr before 15 Gy of
gamma-irradiation. The samples of small intestine were obtained 4
days after irradiation, stained by hematoxylin-eosin and subjected
to pathomorphological analysis.
[0206] In NIH-Swiss (TLR5 wild type) mice, CBLB502 pretreatment led
to preservation of intestinal morphology (long villae, normal
crypts) as compared to short villae and disappearance of normal
crypt structure in PBS-treated mice. Meanwhile, in TLR5-deficient
MOLF/Ei mice the administration of CBLB502 had no improving effect
on intestinal morphology after 15 Gy of gamma-irradiation: short
villae and destruction of the normal crypt structure was observed,
with or without CBLB502. This indicates that the presence of TLR5
may be necessary for CBLB502-mediated radioprotection in the small
intestine.
Example 26
Flagellin Derivatives
[0207] Additional flagellin variants were produced based on the
domain structure shown in FIG. 36. The flagellin variants were then
tested along with some of the variants discussed above for
NF-.kappa.B stimulating activity (Table 3). A549 cells were left
unstimulated or stimulated with TNF (10 ng/ml) as indicated or 1
.mu.g/ml of purified flagellin or the various indicated flagellin
derivatives for 45 min and whole cell extracts prepared as
described in Example 7. EMSA assays were preformed and the
NF-.kappa.B DNA-protein complex detected as described in Example
7.
TABLE-US-00003 TABLE 3 NF-.kappa.B Name N-terminal C-terminal DNA
Protein Stimulation AA' 1-176 402-505 SEQ ID NO: 7 SEQ ID NO: 8 Yes
AB' 1-176 402-450 SEQ ID NO: 9 SEQ ID NO: 10 Yes BA' 54-176 402-505
SEQ ID NO: 11 SEQ ID NO: 12 Yes BB' 54-176 402-450 SEQ ID NO: 13
SEQ ID NO: 14 No CA' 54-100 402-505 SEQ ID NO: 15 SEQ ID NO: 16 No
CB' 54-100 402-450 SEQ ID NO: 17 SEQ ID NO: 18 No AA'n1-170 1-170
402-505 SEQ ID NO: 29 SEQ ID NO: 30 Yes AA'n54-170 54-170 402-505
SEQ ID NO: 31 SEQ ID NO: 32 Yes AB'n1-170 1-170 402-450 SEQ ID NO:
37 SEQ ID NO: 38 Yes AA'n1-163 1-163 402-505 SEQ ID NO: 33 SEQ ID
NO: 34 Yes AA'n54-163 54-163 402-505 SEQ ID NO: 35 SEQ ID NO: 36
Yes AB'n1-163 1-163 402-450 SEQ ID NO: 39 SEQ ID NO: 40 Yes
AA'n1-129 1-129 402-505 SEQ ID NO: 41 SEQ ID NO: 42 Yes AA'n54-129
54-129 402-505 SEQ ID NO: 43 SEQ ID NO: 44 Yes AB'n1-129 1-129
402-450 SEQ ID NO: 45 SEQ ID NO: 46 untested AB'n54-129 54-129
402-450 SEQ ID NO: 47 SEQ ID NO: 48 Untested AA'n1-100 1-100
402-505 SEQ ID NO: 49 SEQ ID NO: 50 untested AB'n1-100 1-100
402-450 SEQ ID NO: 51 SEQ ID NO: 52 untested AA'n1-70 1-70 402-505
SEQ ID NO: 53 SEQ ID NO: 54 No AB'n1-70 1-70 402-450 SEQ ID NO: 55
SEQ ID NO: 56 No A 1-176 SEQ ID NO: 19 SEQ ID NO: 20 No B 54-176
SEQ ID NO: 21 SEQ ID NO: 22 No C 54-100 SEQ ID NO: 23 SEQ ID NO: 24
No GST-A' 402-505 SEQ ID NO: 25 SEQ ID NO: 26 No GST-B' 402-450 SEQ
ID NO: 27 SEQ ID NO: 28 No
[0208] The results in Table 3 indicate that flagellin variants with
at least one polymerization domain (aa1-50 or aa 450-505) that
linked to domains contained within the amino-terminal region (aa
1-176) and those of the carboxy terminus (aa 402-505) are capable
of stimulating NF-.kappa.B and would thus be expected to be
radioprotectors. Physical linkage of the recognition domains may be
required for activity as domains supplied unlinked in trans fail to
activate NF-.kappa.B. As an alternative to the linking of the
domains in a single polypeptide, the domains may be linked using a
linker, which is a molecule that is used to join two molecules. The
linker may be capable of forming covalent bonds or high-affinity
non-covalent bonds to both molecules. Suitable linkers are well
known to those of ordinary skill in the art and include, but are
not limited to, straight or branched-chain carbon linkers,
heterocyclic carbon linkers, or peptide linkers. The linkers may be
joined to the constituent amino acids through their side groups
(e.g., through a disulfide linkage to cysteine).
[0209] The region between amino acids 163 and 176 may be required
for activity when the carboxyl polymerization domain (aa 450-505)
is absent. Since this region is dispensable for activity when the
carboxyl polymerization domain is present it may be involved in
stabilizing the derivative. The region between amino acids 70 and
129 may be important for activation and may be involved in
derivative recognition. The region between amino acids 402 and 450
may also be required for activity. The domains identified above are
located within three large .alpha.-helices (located within amino
acids 54-129 and 402-450) and, to produce an active derivative, may
need to form a ring-like structure (with or without polymerization
domain).
Sequence CWU 1
1
981505PRTSalmonella dublin 1Met Ala Gln Val Ile Asn Thr Asn Ser Leu
Ser Leu Leu Thr Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln Ser Ser
Leu Ser Ser Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu Arg Ile
Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ala Asn
Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr Gln Ala 50 55 60 Ser Arg
Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly 65 70 75 80
Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln Arg Val Arg Glu Leu Ser 85
90 95 Val Gln Ala Thr Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser
Ile 100 105 110 Gln Asp Glu Ile Gln Gln Arg Leu Glu Glu Ile Asp Arg
Val Ser Asn 115 120 125 Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser
Gln Asp Asn Gln Met 130 135 140 Lys Ile Gln Val Gly Ala Asn Asp Gly
Glu Thr Ile Thr Ile Asp Leu 145 150 155 160 Gln Lys Ile Asp Val Lys
Ser Leu Gly Leu Asp Gly Phe Asn Val Asn 165 170 175 Gly Pro Lys Glu
Ala Thr Val Gly Asp Leu Lys Ser Ser Phe Lys Asn 180 185 190 Val Thr
Gly Tyr Asp Thr Tyr Ala Ala Gly Ala Asp Lys Tyr Arg Val 195 200 205
Asp Ile Asn Ser Gly Ala Val Val Thr Asp Ala Ala Ala Pro Asp Lys 210
215 220 Val Tyr Val Asn Ala Ala Asn Gly Gln Leu Thr Thr Asp Asp Ala
Glu 225 230 235 240 Asn Asn Thr Ala Val Asp Leu Phe Lys Thr Thr Lys
Ser Thr Ala Gly 245 250 255 Thr Ala Glu Ala Lys Ala Ile Ala Gly Ala
Ile Lys Gly Gly Lys Glu 260 265 270 Gly Asp Thr Phe Asp Tyr Lys Gly
Val Thr Phe Thr Ile Asp Thr Lys 275 280 285 Thr Gly Asp Asp Gly Asn
Gly Lys Val Ser Thr Thr Ile Asn Gly Glu 290 295 300 Lys Val Thr Leu
Thr Val Ala Asp Ile Ala Thr Gly Ala Ala Asp Val 305 310 315 320 Asn
Ala Ala Thr Leu Gln Ser Ser Lys Asn Val Tyr Thr Ser Val Val 325 330
335 Asn Gly Gln Phe Thr Phe Asp Asp Lys Thr Lys Asn Glu Ser Ala Lys
340 345 350 Leu Ser Asp Leu Glu Ala Asn Asn Ala Val Lys Gly Glu Ser
Lys Ile 355 360 365 Thr Val Asn Gly Ala Glu Tyr Thr Ala Asn Ala Thr
Gly Asp Lys Ile 370 375 380 Thr Leu Ala Gly Lys Thr Met Phe Ile Asp
Lys Thr Ala Ser Gly Val 385 390 395 400 Ser Thr Leu Ile Asn Glu Asp
Ala Ala Ala Ala Lys Lys Ser Thr Ala 405 410 415 Asn Pro Leu Ala Ser
Ile Asp Ser Ala Leu Ser Lys Val Asp Ala Val 420 425 430 Arg Ser Ser
Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr 435 440 445 Asn
Leu Gly Asn Thr Val Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile 450 455
460 Glu Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln
465 470 475 480 Ile Leu Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala
Asn Gln Val 485 490 495 Pro Gln Asn Val Leu Ser Leu Leu Arg 500 505
21518DNASalmonella dublin 2atggcacaag tcattaatac aaacagcctg
tcgctgttga cccagaataa cctgaacaaa 60tctcagtcct cactgagttc cgctattgag
cgtctgtcct ctggtctgcg tatcaacagc 120gcgaaagacg atgcggcagg
ccaggcgatt gctaaccgct tcacttctaa tatcaaaggc 180ctgactcagg
cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac cactgaaggt
240gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt
tcaggccact 300aacgggacta actctgattc cgatctgaaa tctatccagg
atgaaattca gcaacgtctg 360gaagaaatcg atcgcgtttc taatcagact
caatttaacg gtgttaaagt cctctctcag 420gacaaccaga tgaaaatcca
ggttggtgct aacgatggtg aaaccattac catcgatctg 480caaaaaattg
atgtgaaaag ccttggcctt gatgggttca atgttaatgg gccaaaagaa
540gcgacagtgg gtgatctgaa atccagcttc aagaatgtta cgggttacga
cacctatgca 600gcgggtgccg ataaatatcg tgtagatatt aattccggtg
ctgtagtgac tgatgcagca 660gcaccggata aagtatatgt aaatgcagca
aacggtcagt taacaactga cgatgcggaa 720aataacactg cggttgatct
ctttaagacc actaaatcta ctgctggtac cgctgaagcc 780aaagcgatag
ctggtgccat taaaggtggt aaggaaggag atacctttga ttataaaggc
840gtgactttta ctattgatac aaaaactggt gatgacggta atggtaaggt
ttctactacc 900atcaatggtg aaaaagttac gttaactgtc gctgatattg
ccactggcgc ggcggatgtt 960aatgctgcta ccttacaatc aagcaaaaat
gtttatacat ctgtagtgaa cggtcagttt 1020acttttgatg ataaaaccaa
aaacgagagt gcgaaacttt ctgatttgga agcaaacaat 1080gctgttaagg
gcgaaagtaa aattacagta aatggggctg aatatactgc taacgccacg
1140ggtgataaga tcaccttagc tggcaaaacc atgtttattg ataaaacagc
ttctggcgta 1200agtacattaa tcaatgaaga cgctgccgca gccaagaaaa
gtaccgctaa cccactggct 1260tcaattgatt ctgcattgtc aaaagtggac
gcagttcgtt cttctctggg ggcaattcaa 1320aaccgttttg attcagccat
taccaacctt ggcaatacgg taaccaatct gaactccgcg 1380cgtagccgta
tcgaagatgc tgactatgca acggaagttt ctaatatgtc taaagcgcag
1440attctgcagc aggctggtac ttccgttctg gcgcaggcta accaggttcc
gcaaaacgtc 1500ctctctttac tgcgttaa 1518316PRTArtificial
SequenceSynthetic sequence (peptide linker) 3Ser Pro Gly Ile Ser
Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly 1 5 10 15
416PRTArtificial SequenceSynthetic sequence (peptide linker) 4Ile
Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly 1 5 10
15 546DNAArtificial SequenceSynthetic sequence (peptide linker)
5tccccgggaa tttccggtgg tggtggtgga attctagact ccatgg
46646DNAArtificial SequenceSynthetic sequence (peptide linker)
6atcccgggaa tttccggtgg tggtggtgga attctagact ccatgg
467990DNASalmonella dublin 7atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccga tggcacaagt cattaataca 120aacagcctgt cgctgttgac
ccagaataac ctgaacaaat ctcagtcctc actgagttcc 180gctattgagc
gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga tgcggcaggc
240caggcgattg ctaaccgctt cacttctaat atcaaaggcc tgactcaggc
ttcccgtaac 300gctaacgacg gcatttctat tgcgcagacc actgaaggtg
cgctgaatga aatcaacaac 360aacctgcagc gtgtgcgtga gttgtctgtt
caggccacta acgggactaa ctctgattcc 420gatctgaaat ctatccagga
tgaaattcag caacgtctgg aagaaatcga tcgcgtttct 480aatcagactc
aatttaacgg tgttaaagtc ctctctcagg acaaccagat gaaaatccag
540gttggtgcta acgatggtga aaccattacc atcgatctgc aaaaaattga
tgtgaaaagc 600cttggccttg atgggttcaa tgttaattcc ccgggaattt
ccggtggtgg tggtggaatt 660ctagactcca tgggtacatt aatcaatgaa
gacgctgccg cagccaagaa aagtaccgct 720aacccactgg cttcaattga
ttctgcattg tcaaaagtgg acgcagttcg ttcttctctg 780ggggcaattc
aaaaccgttt tgattcagcc attaccaacc ttggcaatac ggtaaccaat
840ctgaactccg cgcgtagccg tatcgaagat gctgactatg caacggaagt
ttctaatatg 900tctaaagcgc agattctgca gcaggctggt acttccgttc
tggcgcaggc taaccaggtt 960ccgcaaaacg tcctctcttt actgcgttag
9908329PRTSalmonella dublin 8Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu Ile Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn Gln Thr Gln
Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln 165 170 175 Met Lys
Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp 180 185 190
Leu Gln Lys Ile Asp Val Lys Ser Leu Gly Leu Asp Gly Phe Asn Val 195
200 205 Asn Ser Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser
Met 210 215 220 Gly Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys
Ser Thr Ala 225 230 235 240 Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu
Ser Lys Val Asp Ala Val 245 250 255 Arg Ser Ser Leu Gly Ala Ile Gln
Asn Arg Phe Asp Ser Ala Ile Thr 260 265 270 Asn Leu Gly Asn Thr Val
Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile 275 280 285 Glu Asp Ala Asp
Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln 290 295 300 Ile Leu
Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val 305 310 315
320 Pro Gln Asn Val Leu Ser Leu Leu Arg 325 9825DNASalmonella
dublin 9atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg
tggacagcaa 60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt
cattaataca 120aacagcctgt cgctgttgac ccagaataac ctgaacaaat
ctcagtcctc actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt
atcaacagcg cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt
cacttctaat atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgacg
gcatttctat tgcgcagacc actgaaggtg cgctgaatga aatcaacaac
360aacctgcagc gtgtgcgtga gttgtctgtt caggccacta acgggactaa
ctctgattcc 420gatctgaaat ctatccagga tgaaattcag caacgtctgg
aagaaatcga tcgcgtttct 480aatcagactc aatttaacgg tgttaaagtc
ctctctcagg acaaccagat gaaaatccag 540gttggtgcta acgatggtga
aaccattacc atcgatctgc aaaaaattga tgtgaaaagc 600cttggccttg
atgggttcaa tgttaattcc ccgggaattt ccggtggtgg tggtggaatt
660ctagactcca tgggtacatt aatcaatgaa gacgctgccg cagccaagaa
aagtaccgct 720aacccactgg cttcaattga ttctgcattg tcaaaagtgg
acgcagttcg ttcttctctg 780ggggcaattc aaaaccgttt tgattcagcc
attaccaacc tttag 82510274PRTSalmonella dublin 10Met Arg Gly Ser His
His His His His His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln
Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro
Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40
45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg
50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala
Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys
Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser
Ile Ala Gln Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn
Asn Leu Gln Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn
Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu
Ile Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn
Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln 165 170
175 Met Lys Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp
180 185 190 Leu Gln Lys Ile Asp Val Lys Ser Leu Gly Leu Asp Gly Phe
Asn Val 195 200 205 Asn Ser Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile
Leu Asp Ser Met 210 215 220 Gly Thr Leu Ile Asn Glu Asp Ala Ala Ala
Ala Lys Lys Ser Thr Ala 225 230 235 240 Asn Pro Leu Ala Ser Ile Asp
Ser Ala Leu Ser Lys Val Asp Ala Val 245 250 255 Arg Ser Ser Leu Gly
Ala Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr 260 265 270 Asn Leu
11831DNASalmonella dublin 11atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccgt tcacttctaa tatcaaaggc 120ctgactcagg cttcccgtaa
cgctaacgac ggcatttcta ttgcgcagac cactgaaggt 180gcgctgaatg
aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt tcaggccact
240aacgggacta actctgattc cgatctgaaa tctatccagg atgaaattca
gcaacgtctg 300gaagaaatcg atcgcgtttc taatcagact caatttaacg
gtgttaaagt cctctctcag 360gacaaccaga tgaaaatcca ggttggtgct
aacgatggtg aaaccattac catcgatctg 420caaaaaattg atgtgaaaag
ccttggcctt gatgggttca atgttaattc cccgggaatt 480tccggtggtg
gtggtggaat tctagactcc atgggtacat taatcaatga agacgctgcc
540gcagccaaga aaagtaccgc taacccactg gcttcaattg attctgcatt
gtcaaaagtg 600gacgcagttc gttcttctct gggggcaatt caaaaccgtt
ttgattcagc cattaccaac 660cttggcaata cggtaaccaa tctgaactcc
gcgcgtagcc gtatcgaaga tgctgactat 720gcaacggaag tttctaatat
gtctaaagcg cagattctgc agcaggctgg tacttccgtt 780ctggcgcagg
ctaaccaggt tccgcaaaac gtcctctctt tactgcgtta g 83112276PRTSalmonella
dublin 12Met Arg Gly Ser His His His His His His Gly Met Ala Ser
Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp
Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70 75 80 Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser Ile Gln Asp Glu Ile 85 90 95 Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser Asn Gln Thr Gln Phe 100 105 110
Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln Met Lys Ile Gln Val 115
120 125 Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp Leu Gln Lys Ile
Asp 130 135 140 Val Lys Ser Leu Gly Leu Asp Gly Phe Asn Val Asn Ser
Pro Gly Ile 145 150 155 160 Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser
Met Gly Thr Leu Ile Asn 165 170 175 Glu Asp Ala Ala Ala Ala Lys Lys
Ser Thr Ala Asn Pro Leu Ala Ser 180 185 190 Ile Asp Ser Ala Leu Ser
Lys Val Asp Ala Val Arg Ser Ser Leu Gly 195 200 205 Ala Ile Gln Asn
Arg Phe Asp Ser Ala Ile Thr Asn Leu Gly Asn Thr 210 215 220 Val Thr
Asn Leu Asn Ser Ala Arg Ser Arg Ile Glu Asp Ala Asp Tyr 225 230 235
240 Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln Ile Leu Gln Gln Ala
245 250 255 Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val Pro Gln Asn
Val Leu 260 265 270 Ser Leu Leu Arg 275 13666DNASalmonella dublin
13atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa
60atgggtcggg atctgtacga cgatgacgat aaggatccgt tcacttctaa tatcaaaggc
120ctgactcagg cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac
cactgaaggt 180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg
agttgtctgt tcaggccact 240aacgggacta actctgattc cgatctgaaa
tctatccagg atgaaattca gcaacgtctg 300gaagaaatcg atcgcgtttc
taatcagact caatttaacg gtgttaaagt cctctctcag 360gacaaccaga
tgaaaatcca ggttggtgct aacgatggtg aaaccattac catcgatctg
420caaaaaattg atgtgaaaag ccttggcctt gatgggttca atgttaattc
cccgggaatt 480tccggtggtg gtggtggaat tctagactcc atgggtacat
taatcaatga agacgctgcc 540gcagccaaga aaagtaccgc taacccactg
gcttcaattg attctgcatt gtcaaaagtg 600gacgcagttc gttcttctct
gggggcaatt caaaaccgtt ttgattcagc cattaccaac 660ctttag
66614221PRTSalmonella dublin 14Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn
Ile Lys Gly Leu Thr Gln Ala Ser Arg Asn
Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly Ala
Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln Arg Val Arg Glu Leu
Ser Val Gln Ala Thr 65 70 75 80 Asn Gly Thr Asn Ser Asp Ser Asp Leu
Lys Ser Ile Gln Asp Glu Ile 85 90 95 Gln Gln Arg Leu Glu Glu Ile
Asp Arg Val Ser Asn Gln Thr Gln Phe 100 105 110 Asn Gly Val Lys Val
Leu Ser Gln Asp Asn Gln Met Lys Ile Gln Val 115 120 125 Gly Ala Asn
Asp Gly Glu Thr Ile Thr Ile Asp Leu Gln Lys Ile Asp 130 135 140 Val
Lys Ser Leu Gly Leu Asp Gly Phe Asn Val Asn Ser Pro Gly Ile 145 150
155 160 Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly Thr Leu Ile
Asn 165 170 175 Glu Asp Ala Ala Ala Ala Lys Lys Ser Thr Ala Asn Pro
Leu Ala Ser 180 185 190 Ile Asp Ser Ala Leu Ser Lys Val Asp Ala Val
Arg Ser Ser Leu Gly 195 200 205 Ala Ile Gln Asn Arg Phe Asp Ser Ala
Ile Thr Asn Leu 210 215 220 15603DNASalmonella dublin 15atgcggggtt
ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg
atctgtacga cgatgacgat aaggatccgt tcacttctaa tatcaaaggc
120ctgactcagg cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac
cactgaaggt 180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg
agttgtctgt tcaggccact 240tccccgggaa tttccggtgg tggtggtgga
attctagact ccatgggtac attaatcaat 300gaagacgctg ccgcagccaa
gaaaagtacc gctaacccac tggcttcaat tgattctgca 360ttgtcaaaag
tggacgcagt tcgttcttct ctgggggcaa ttcaaaaccg ttttgattca
420gccattacca accttggcaa tacggtaacc aatctgaact ccgcgcgtag
ccgtatcgaa 480gatgctgact atgcaacgga agtttctaat atgtctaaag
cgcagattct gcagcaggct 540ggtacttccg ttctggcgca ggctaaccag
gttccgcaaa acgtcctctc tttactgcgt 600tag 60316200PRTSalmonella
dublin 16Met Arg Gly Ser His His His His His His Gly Met Ala Ser
Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp
Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70 75 80 Ser Pro Gly Ile
Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly 85 90 95 Thr Leu
Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys Ser Thr Ala Asn 100 105 110
Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys Val Asp Ala Val Arg 115
120 125 Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr
Asn 130 135 140 Leu Gly Asn Thr Val Thr Asn Leu Asn Ser Ala Arg Ser
Arg Ile Glu 145 150 155 160 Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn
Met Ser Lys Ala Gln Ile 165 170 175 Leu Gln Gln Ala Gly Thr Ser Val
Leu Ala Gln Ala Asn Gln Val Pro 180 185 190 Gln Asn Val Leu Ser Leu
Leu Arg 195 200 17438DNASalmonella dublin 17atgcggggtt ctcatcatca
tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga
cgatgacgat aaggatccgt tcacttctaa tatcaaaggc 120ctgactcagg
cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac cactgaaggt
180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt
tcaggccact 240tccccgggaa tttccggtgg tggtggtgga attctagact
ccatgggtac attaatcaat 300gaagacgctg ccgcagccaa gaaaagtacc
gctaacccac tggcttcaat tgattctgca 360ttgtcaaaag tggacgcagt
tcgttcttct ctgggggcaa ttcaaaaccg ttttgattca 420gccattacca acctttag
43818145PRTSalmonella dublin 18Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn
Ile Lys Gly Leu Thr Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly
Ile Ser Ile Ala Gln Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile
Asn Asn Asn Leu Gln Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70
75 80 Ser Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser Met
Gly 85 90 95 Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys Ser
Thr Ala Asn 100 105 110 Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys
Val Asp Ala Val Arg 115 120 125 Ser Ser Leu Gly Ala Ile Gln Asn Arg
Phe Asp Ser Ala Ile Thr Asn 130 135 140 Leu 145 19639DNASalmonella
dublin 19atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg
tggacagcaa 60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt
cattaataca 120aacagcctgt cgctgttgac ccagaataac ctgaacaaat
ctcagtcctc actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt
atcaacagcg cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt
cacttctaat atcaaaggtc tgactcaggc ttcccgtaac 300gctaacgacg
gcatttctat tgcgcagacc actgaaggtg cgctgaatga aatcaacaac
360aacctgcagc gtgtgcgtga gttgtctgtt caggccacta acgggactaa
ctctgattcc 420gatctgaaat ctatccagga tgaaattcag caacgtctgg
aagaaatcga tcgcgtttct 480aatcagactc aatttaacgg tgttaaagtc
ctgtctcagg acaaccagat gaaaatccag 540gttggtgcta acgatggtga
aaccattacc atcgatctgc aaaaaattga tgtgaaaagc 600cttggccttg
atgggttcaa tgttaattcc ccgggatga 63920212PRTSalmonella dublin 20Met
Arg Gly Ser His His His His His His Gly Met Ala Ser Met Thr 1 5 10
15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp
20 25 30 Pro Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu Leu
Thr Gln 35 40 45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser Ser
Ala Ile Glu Arg 50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser Ala
Lys Asp Asp Ala Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe Thr
Ser Asn Ile Lys Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala Asn
Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu 100 105 110 Gly Ala Leu Asn
Glu Ile Asn Asn Asn Leu Gln Arg Val Arg Glu Leu 115 120 125 Ser Val
Gln Ala Thr Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser 130 135 140
Ile Gln Asp Glu Ile Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser 145
150 155 160 Asn Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser Gln Asp
Asn Gln 165 170 175 Met Lys Ile Gln Val Gly Ala Asn Asp Gly Glu Thr
Ile Thr Ile Asp 180 185 190 Leu Gln Lys Ile Asp Val Lys Ser Leu Gly
Leu Asp Gly Phe Asn Val 195 200 205 Asn Ser Pro Gly 210
21480DNASalmonella dublin 21atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccgt tcacttctaa tatcaaaggt 120ctgactcagg cttcccgtaa
cgctaacgac ggcatttcta ttgcgcagac cactgaaggt 180gcgctgaatg
aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt tcaggccact
240aacgggacta actctgattc cgatctgaaa tctatccagg atgaaattca
gcaacgtctg 300gaagaaatcg atcgcgtttc taatcagact caatttaacg
gtgttaaagt cctgtctcag 360gacaaccaga tgaaaatcca ggttggtgct
aacgatggtg aaaccattac catcgatctg 420caaaaaattg atgtgaaaag
ccttggcctt gatgggttca atgttaattc cccgggatga 48022159PRTSalmonella
dublin 22Met Arg Gly Ser His His His His His His Gly Met Ala Ser
Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp
Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70 75 80 Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser Ile Gln Asp Glu Ile 85 90 95 Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser Asn Gln Thr Gln Phe 100 105 110
Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln Met Lys Ile Gln Val 115
120 125 Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp Leu Gln Lys Ile
Asp 130 135 140 Val Lys Ser Leu Gly Leu Asp Gly Phe Asn Val Asn Ser
Pro Gly 145 150 155 23252DNASalmonella dublin 23atgcggggtt
ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg
atctgtacga cgatgacgat aaggatccgt tcacttctaa tatcaaaggt
120ctgactcagg cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac
cactgaaggt 180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg
agttgtctgt tcaggccact 240tccccgggat ga 2522483PRTSalmonella dublin
24Met Arg Gly Ser His His His His His His Gly Met Ala Ser Met Thr 1
5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys
Asp 20 25 30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr Gln Ala Ser
Arg Asn Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu
Gly Ala Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln Arg Val Arg
Glu Leu Ser Val Gln Ala Thr 65 70 75 80 Ser Pro Gly
251038DNASalmonella dublin 25atgtccccta tactaggtta ttggaaaatt
aagggccttg tgcaacccac tcgacttctt 60ttggaatatc ttgaagaaaa atatgaagag
catttgtatg agcgcgatga aggtgataaa 120tggcgaaaca aaaagtttga
attgggtttg gagtttccca atcttcctta ttatattgat 180ggtgatgtta
aattaacaca gtctatggcc atcatacgtt atatagctga caagcacaac
240atgttgggtg gttgtccaaa agagcgtgca gagatttcaa tgcttgaagg
agcggttttg 300gatattagat acggtgtttc gagaattgca tatagtaaag
actttgaaac tctcaaagtt 360gattttctta gcaagctacc tgaaatgctg
aaaatgttcg aagatcgttt atgtcataaa 420acatatttaa atggtgatca
tgtaacccat cctgacttca tgttgtatga cgctcttgat 480gttgttttat
acatggaccc aatgtgcctg gatgcgttcc caaaattagt ttgttttaaa
540aaacgtattg aagctatccc acaaattgat aagtacttga aatccagcaa
gtatatagca 600tggcctttgc agggctggca agccacgttt ggtggtggcg
accatcctcc aaaatcggat 660ctggttccgc gtggatcccc gggaatttcc
ggtggtggtg gtggaattct agactccatg 720ggtacattaa tcaatgaaga
cgctgccgca gccaagaaaa gtaccgctaa cccactggct 780tcaattgatt
ctgcattgtc aaaagtggac gcagttcgtt cttctctggg ggcaattcaa
840aaccgttttg attcagccat taccaacctt ggcaatacgg taaccaatct
gaactccgcg 900cgtagccgta tcgaagatgc tgactatgca acggaagttt
ctaatatgtc taaagcgcag 960attctgcagc aggctggtac ttccgttctg
gcgcaggcta accaggttcc gcaaaacgtc 1020ctctctttac tgcgttag
103826345PRTSalmonella dublin 26Met Ser Pro Ile Leu Gly Tyr Trp Lys
Ile Lys Gly Leu Val Gln Pro 1 5 10 15 Thr Arg Leu Leu Leu Glu Tyr
Leu Glu Glu Lys Tyr Glu Glu His Leu 20 25 30 Tyr Glu Arg Asp Glu
Gly Asp Lys Trp Arg Asn Lys Lys Phe Glu Leu 35 40 45 Gly Leu Glu
Phe Pro Asn Leu Pro Tyr Tyr Ile Asp Gly Asp Val Lys 50 55 60 Leu
Thr Gln Ser Met Ala Ile Ile Arg Tyr Ile Ala Asp Lys His Asn 65 70
75 80 Met Leu Gly Gly Cys Pro Lys Glu Arg Ala Glu Ile Ser Met Leu
Glu 85 90 95 Gly Ala Val Leu Asp Ile Arg Tyr Gly Val Ser Arg Ile
Ala Tyr Ser 100 105 110 Lys Asp Phe Glu Thr Leu Lys Val Asp Phe Leu
Ser Lys Leu Pro Glu 115 120 125 Met Leu Lys Met Phe Glu Asp Arg Leu
Cys His Lys Thr Tyr Leu Asn 130 135 140 Gly Asp His Val Thr His Pro
Asp Phe Met Leu Tyr Asp Ala Leu Asp 145 150 155 160 Val Val Leu Tyr
Met Asp Pro Met Cys Leu Asp Ala Phe Pro Lys Leu 165 170 175 Val Cys
Phe Lys Lys Arg Ile Glu Ala Ile Pro Gln Ile Asp Lys Tyr 180 185 190
Leu Lys Ser Ser Lys Tyr Ile Ala Trp Pro Leu Gln Gly Trp Gln Ala 195
200 205 Thr Phe Gly Gly Gly Asp His Pro Pro Lys Ser Asp Leu Val Pro
Arg 210 215 220 Gly Ser Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu
Asp Ser Met 225 230 235 240 Gly Thr Leu Ile Asn Glu Asp Ala Ala Ala
Ala Lys Lys Ser Thr Ala 245 250 255 Asn Pro Leu Ala Ser Ile Asp Ser
Ala Leu Ser Lys Val Asp Ala Val 260 265 270 Arg Ser Ser Leu Gly Ala
Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr 275 280 285 Asn Leu Gly Asn
Thr Val Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile 290 295 300 Glu Asp
Ala Asp Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln 305 310 315
320 Ile Leu Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val
325 330 335 Pro Gln Asn Val Leu Ser Leu Leu Arg 340 345
27873DNASalmonella dublin 27atgtccccta tactaggtta ttggaaaatt
aagggccttg tgcaacccac tcgacttctt 60ttggaatatc ttgaagaaaa atatgaagag
catttgtatg agcgcgatga aggtgataaa 120tggcgaaaca aaaagtttga
attgggtttg gagtttccca atcttcctta ttatattgat 180ggtgatgtta
aattaacaca gtctatggcc atcatacgtt atatagctga caagcacaac
240atgttgggtg gttgtccaaa agagcgtgca gagatttcaa tgcttgaagg
agcggttttg 300gatattagat acggtgtttc gagaattgca tatagtaaag
actttgaaac tctcaaagtt 360gattttctta gcaagctacc tgaaatgctg
aaaatgttcg aagatcgttt atgtcataaa 420acatatttaa atggtgatca
tgtaacccat cctgacttca tgttgtatga cgctcttgat 480gttgttttat
acatggaccc aatgtgcctg gatgcgttcc caaaattagt ttgttttaaa
540aaacgtattg aagctatccc acaaattgat aagtacttga aatccagcaa
gtatatagca 600tggcctttgc agggctggca agccacgttt ggtggtggcg
accatcctcc aaaatcggat 660ctggttccgc gtggatcccc gggaatttcc
ggtggtggtg gtggaattct agactccatg 720ggtacattaa tcaatgaaga
cgctgccgca gccaagaaaa gtaccgctaa cccactggct 780tcaattgatt
ctgcattgtc aaaagtggac gcagttcgtt cttctctggg ggcaattcaa
840aaccgttttg attcagccat taccaacctt tag 87328290PRTSalmonella
dublin 28Met Ser Pro Ile Leu Gly Tyr Trp Lys Ile Lys Gly Leu Val
Gln Pro 1 5 10 15 Thr Arg Leu Leu Leu Glu Tyr Leu Glu Glu Lys Tyr
Glu Glu His Leu 20 25 30 Tyr Glu Arg Asp Glu Gly Asp Lys Trp Arg
Asn Lys Lys Phe Glu Leu 35 40 45 Gly Leu Glu Phe Pro Asn Leu Pro
Tyr Tyr Ile Asp Gly Asp Val Lys 50 55 60 Leu Thr Gln Ser Met Ala
Ile Ile Arg Tyr Ile Ala Asp Lys His Asn 65 70 75 80 Met Leu Gly Gly
Cys Pro Lys Glu Arg Ala Glu Ile Ser Met Leu Glu 85 90 95 Gly Ala
Val Leu Asp Ile Arg Tyr Gly Val Ser Arg Ile Ala Tyr Ser 100 105 110
Lys Asp Phe Glu Thr Leu Lys Val Asp Phe Leu Ser Lys Leu Pro Glu 115
120 125 Met Leu Lys Met Phe Glu Asp Arg Leu Cys His Lys Thr Tyr Leu
Asn 130 135 140 Gly Asp His Val Thr His Pro Asp Phe Met Leu Tyr Asp
Ala Leu Asp 145 150 155 160 Val Val Leu Tyr Met Asp Pro Met Cys Leu
Asp Ala Phe Pro Lys Leu 165 170 175 Val Cys Phe Lys Lys Arg Ile Glu
Ala Ile Pro Gln Ile Asp Lys Tyr 180 185 190 Leu Lys Ser Ser Lys Tyr
Ile Ala Trp Pro Leu Gln Gly Trp Gln Ala 195 200 205 Thr Phe Gly Gly
Gly Asp His Pro Pro Lys Ser Asp Leu Val Pro Arg 210 215 220 Gly Ser
Pro Gly
Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser Met 225 230 235 240 Gly
Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys Ser Thr Ala 245 250
255 Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys Val Asp Ala Val
260 265 270 Arg Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala
Ile Thr 275 280 285 Asn Leu 290 29972DNASalmonella dublin
29atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa
60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt cattaataca
120aacagcctgt cgctgttgac ccagaataac ctgaacaaat ctcagtcctc
actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt atcaacagcg
cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt cacttctaat
atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgacg gcatttctat
tgcgcagacc actgaaggtg cgctgaatga aatcaacaac 360aacctgcagc
gtgtgcgtga gttgtctgtt caggccacta acgggactaa ctctgattcc
420gatctgaaat ctatccagga tgaaattcag caacgtctgg aagaaatcga
tcgcgtttct 480aatcagactc aatttaacgg tgttaaagtc ctctctcagg
acaaccagat gaaaatccag 540gttggtgcta acgatggtga aaccattacc
atcgatctgc aaaaaattga tgtgaaaagc 600cttggcctta tcccgggaat
ttccggtggt ggtggtggaa ttctagactc catgggtaca 660ttaatcaatg
aagacgctgc cgcagccaag aaaagtaccg ctaacccact ggcttcaatt
720gattctgcat tgtcaaaagt ggacgcagtt cgttcttctc tgggggcaat
tcaaaaccgt 780tttgattcag ccattaccaa ccttggcaat acggtaacca
atctgaactc cgcgcgtagc 840cgtatcgaag atgctgacta tgcaacggaa
gtttctaata tgtctaaagc gcagattctg 900cagcaggctg gtacttccgt
tctggcgcag gctaaccagg ttccgcaaaa cgtcctctct 960ttactgcgtt ag
97230323PRTSalmonella dublin 30Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu Ile Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn Gln Thr Gln
Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln 165 170 175 Met Lys
Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp 180 185 190
Leu Gln Lys Ile Asp Val Lys Ser Leu Gly Leu Ile Pro Gly Ile Ser 195
200 205 Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly Thr Leu Ile Asn
Glu 210 215 220 Asp Ala Ala Ala Ala Lys Lys Ser Thr Ala Asn Pro Leu
Ala Ser Ile 225 230 235 240 Asp Ser Ala Leu Ser Lys Val Asp Ala Val
Arg Ser Ser Leu Gly Ala 245 250 255 Ile Gln Asn Arg Phe Asp Ser Ala
Ile Thr Asn Leu Gly Asn Thr Val 260 265 270 Thr Asn Leu Asn Ser Ala
Arg Ser Arg Ile Glu Asp Ala Asp Tyr Ala 275 280 285 Thr Glu Val Ser
Asn Met Ser Lys Ala Gln Ile Leu Gln Gln Ala Gly 290 295 300 Thr Ser
Val Leu Ala Gln Ala Asn Gln Val Pro Gln Asn Val Leu Ser 305 310 315
320 Leu Leu Arg 31813DNASalmonella dublin 31atgcggggtt ctcatcatca
tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga
cgatgacgat aaggatccgt tcacttctaa tatcaaaggc 120ctgactcagg
cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac cactgaaggt
180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt
tcaggccact 240aacgggacta actctgattc cgatctgaaa tctatccagg
atgaaattca gcaacgtctg 300gaagaaatcg atcgcgtttc taatcagact
caatttaacg gtgttaaagt cctctctcag 360gacaaccaga tgaaaatcca
ggttggtgct aacgatggtg aaaccattac catcgatctg 420caaaaaattg
atgtgaaaag ccttggcctt atcccgggaa tttccggtgg tggtggtgga
480attctagact ccatgggtac attaatcaat gaagacgctg ccgcagccaa
gaaaagtacc 540gctaacccac tggcttcaat tgattctgca ttgtcaaaag
tggacgcagt tcgttcttct 600ctgggggcaa ttcaaaaccg ttttgattca
gccattacca accttggcaa tacggtaacc 660aatctgaact ccgcgcgtag
ccgtatcgaa gatgctgact atgcaacgga agtttctaat 720atgtctaaag
cgcagattct gcagcaggct ggtacttccg ttctggcgca ggctaaccag
780gttccgcaaa acgtcctctc tttactgcgt tag 81332270PRTSalmonella
dublin 32Met Arg Gly Ser His His His His His His Gly Met Ala Ser
Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp
Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70 75 80 Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser Ile Gln Asp Glu Ile 85 90 95 Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser Asn Gln Thr Gln Phe 100 105 110
Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln Met Lys Ile Gln Val 115
120 125 Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp Leu Gln Lys Ile
Asp 130 135 140 Val Lys Ser Leu Gly Leu Ile Pro Gly Ile Ser Gly Gly
Gly Gly Gly 145 150 155 160 Ile Leu Asp Ser Met Gly Thr Leu Ile Asn
Glu Asp Ala Ala Ala Ala 165 170 175 Lys Lys Ser Thr Ala Asn Pro Leu
Ala Ser Ile Asp Ser Ala Leu Ser 180 185 190 Lys Val Asp Ala Val Arg
Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe 195 200 205 Asp Ser Ala Ile
Thr Asn Leu Gly Asn Thr Val Thr Asn Leu Asn Ser 210 215 220 Ala Arg
Ser Arg Ile Glu Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn 225 230 235
240 Met Ser Lys Ala Gln Ile Leu Gln Gln Ala Gly Thr Ser Val Leu Ala
245 250 255 Gln Ala Asn Gln Val Pro Gln Asn Val Leu Ser Leu Leu Arg
260 265 270 33951DNASalmonella dublin 33atgcggggtt ctcatcatca
tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga
cgatgacgat aaggatccga tggcacaagt cattaataca 120aacagcctgt
cgctgttgac ccagaataac ctgaacaaat ctcagtcctc actgagttcc
180gctattgagc gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga
tgcggcaggc 240caggcgattg ctaaccgctt cacttctaat atcaaaggcc
tgactcaggc ttcccgtaac 300gctaacgacg gcatttctat tgcgcagacc
actgaaggtg cgctgaatga aatcaacaac 360aacctgcagc gtgtgcgtga
gttgtctgtt caggccacta acgggactaa ctctgattcc 420gatctgaaat
ctatccagga tgaaattcag caacgtctgg aagaaatcga tcgcgtttct
480aatcagactc aatttaacgg tgttaaagtc ctctctcagg acaaccagat
gaaaatccag 540gttggtgcta acgatggtga aaccattacc atcgatctgc
aaaaaattat cccgggaatt 600tccggtggtg gtggtggaat tctagactcc
atgggtacat taatcaatga agacgctgcc 660gcagccaaga aaagtaccgc
taacccactg gcttcaattg attctgcatt gtcaaaagtg 720gacgcagttc
gttcttctct gggggcaatt caaaaccgtt ttgattcagc cattaccaac
780cttggcaata cggtaaccaa tctgaactcc gcgcgtagcc gtatcgaaga
tgctgactat 840gcaacggaag tttctaatat gtctaaagcg cagattctgc
agcaggctgg tacttccgtt 900ctggcgcagg ctaaccaggt tccgcaaaac
gtcctctctt tactgcgtta g 95134316PRTSalmonella dublin 34Met Arg Gly
Ser His His His His His His Gly Met Ala Ser Met Thr 1 5 10 15 Gly
Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25
30 Pro Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln
35 40 45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile
Glu Arg 50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp
Asp Ala Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn
Ile Lys Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly
Ile Ser Ile Ala Gln Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile
Asn Asn Asn Leu Gln Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala
Thr Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln
Asp Glu Ile Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155
160 Asn Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln
165 170 175 Met Lys Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr
Ile Asp 180 185 190 Leu Gln Lys Ile Ile Pro Gly Ile Ser Gly Gly Gly
Gly Gly Ile Leu 195 200 205 Asp Ser Met Gly Thr Leu Ile Asn Glu Asp
Ala Ala Ala Ala Lys Lys 210 215 220 Ser Thr Ala Asn Pro Leu Ala Ser
Ile Asp Ser Ala Leu Ser Lys Val 225 230 235 240 Asp Ala Val Arg Ser
Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser 245 250 255 Ala Ile Thr
Asn Leu Gly Asn Thr Val Thr Asn Leu Asn Ser Ala Arg 260 265 270 Ser
Arg Ile Glu Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn Met Ser 275 280
285 Lys Ala Gln Ile Leu Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala
290 295 300 Asn Gln Val Pro Gln Asn Val Leu Ser Leu Leu Arg 305 310
315 35792DNASalmonella dublin 35atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccgt tcacttctaa tatcaaaggc 120ctgactcagg cttcccgtaa
cgctaacgac ggcatttcta ttgcgcagac cactgaaggt 180gcgctgaatg
aaatcaacaa caacctgcag cgtgtgcgtg agttgtctgt tcaggccact
240aacgggacta actctgattc cgatctgaaa tctatccagg atgaaattca
gcaacgtctg 300gaagaaatcg atcgcgtttc taatcagact caatttaacg
gtgttaaagt cctctctcag 360gacaaccaga tgaaaatcca ggttggtgct
aacgatggtg aaaccattac catcgatctg 420caaaaaatta tcccgggaat
ttccggtggt ggtggtggaa ttctagactc catgggtaca 480ttaatcaatg
aagacgctgc cgcagccaag aaaagtaccg ctaacccact ggcttcaatt
540gattctgcat tgtcaaaagt ggacgcagtt cgttcttctc tgggggcaat
tcaaaaccgt 600tttgattcag ccattaccaa ccttggcaat acggtaacca
atctgaactc cgcgcgtagc 660cgtatcgaag atgctgacta tgcaacggaa
gtttctaata tgtctaaagc gcagattctg 720cagcaggctg gtacttccgt
tctggcgcag gctaaccagg ttccgcaaaa cgtcctctct 780ttactgcgtt ag
79236263PRTSalmonella dublin 36Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn
Ile Lys Gly Leu Thr Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly
Ile Ser Ile Ala Gln Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile
Asn Asn Asn Leu Gln Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70
75 80 Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser Ile Gln Asp Glu
Ile 85 90 95 Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser Asn Gln
Thr Gln Phe 100 105 110 Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln
Met Lys Ile Gln Val 115 120 125 Gly Ala Asn Asp Gly Glu Thr Ile Thr
Ile Asp Leu Gln Lys Ile Ile 130 135 140 Pro Gly Ile Ser Gly Gly Gly
Gly Gly Ile Leu Asp Ser Met Gly Thr 145 150 155 160 Leu Ile Asn Glu
Asp Ala Ala Ala Ala Lys Lys Ser Thr Ala Asn Pro 165 170 175 Leu Ala
Ser Ile Asp Ser Ala Leu Ser Lys Val Asp Ala Val Arg Ser 180 185 190
Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr Asn Leu 195
200 205 Gly Asn Thr Val Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile Glu
Asp 210 215 220 Ala Asp Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala
Gln Ile Leu 225 230 235 240 Gln Gln Ala Gly Thr Ser Val Leu Ala Gln
Ala Asn Gln Val Pro Gln 245 250 255 Asn Val Leu Ser Leu Leu Arg 260
37807DNASalmonella dublin 37atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccga tggcacaagt cattaataca 120aacagcctgt cgctgttgac
ccagaataac ctgaacaaat ctcagtcctc actgagttcc 180gctattgagc
gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga tgcggcaggc
240caggcgattg ctaaccgctt cacttctaat atcaaaggcc tgactcaggc
ttcccgtaac 300gctaacgacg gcatttctat tgcgcagacc actgaaggtg
cgctgaatga aatcaacaac 360aacctgcagc gtgtgcgtga gttgtctgtt
caggccacta acgggactaa ctctgattcc 420gatctgaaat ctatccagga
tgaaattcag caacgtctgg aagaaatcga tcgcgtttct 480aatcagactc
aatttaacgg tgttaaagtc ctctctcagg acaaccagat gaaaatccag
540gttggtgcta acgatggtga aaccattacc atcgatctgc aaaaaattga
tgtgaaaagc 600cttggcctta tcccgggaat ttccggtggt ggtggtggaa
ttctagactc catgggtaca 660ttaatcaatg aagacgctgc cgcagccaag
aaaagtaccg ctaacccact ggcttcaatt 720gattctgcat tgtcaaaagt
ggacgcagtt cgttcttctc tgggggcaat tcaaaaccgt 780tttgattcag
ccattaccaa cctttag 80738268PRTSalmonella dublin 38Met Arg Gly Ser
His His His His His His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly
Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30
Pro Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35
40 45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu
Arg 50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp
Ala Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile
Lys Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile
Ser Ile Ala Gln Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn
Asn Asn Leu Gln Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr
Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp
Glu Ile Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160
Asn Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln 165
170 175 Met Lys Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile
Asp 180 185 190 Leu Gln Lys Ile Asp Val Lys Ser Leu Gly Leu Ile Pro
Gly Ile Ser 195 200 205 Gly Gly Gly Gly Gly Ile Leu Asp Ser Met Gly
Thr Leu Ile Asn Glu 210 215 220 Asp Ala Ala Ala Ala Lys Lys Ser Thr
Ala Asn Pro Leu Ala Ser Ile 225 230 235 240 Asp Ser Ala Leu Ser Lys
Val Asp Ala Val Arg Ser Ser Leu Gly Ala 245 250 255 Ile Gln Asn Arg
Phe Asp Ser Ala Ile Thr Asn Leu 260 265 39786DNASalmonella dublin
39atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa
60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt cattaataca
120aacagcctgt cgctgttgac ccagaataac ctgaacaaat ctcagtcctc
actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt atcaacagcg
cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt cacttctaat
atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgacg gcatttctat
tgcgcagacc actgaaggtg cgctgaatga aatcaacaac 360aacctgcagc
gtgtgcgtga gttgtctgtt caggccacta acgggactaa ctctgattcc
420gatctgaaat ctatccagga tgaaattcag caacgtctgg aagaaatcga
tcgcgtttct
480aatcagactc aatttaacgg tgttaaagtc ctctctcagg acaaccagat
gaaaatccag 540gttggtgcta acgatggtga aaccattacc atcgatctgc
aaaaaattat cccgggaatt 600tccggtggtg gtggtggaat tctagactcc
atgggtacat taatcaatga agacgctgcc 660gcagccaaga aaagtaccgc
taacccactg gcttcaattg attctgcatt gtcaaaagtg 720gacgcagttc
gttcttctct gggggcaatt caaaaccgtt ttgattcagc cattaccaac 780ctttag
78640261PRTSalmonella dublin 40Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu Ile Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn Gln Thr Gln
Phe Asn Gly Val Lys Val Leu Ser Gln Asp Asn Gln 165 170 175 Met Lys
Ile Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp 180 185 190
Leu Gln Lys Ile Ile Pro Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu 195
200 205 Asp Ser Met Gly Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys
Lys 210 215 220 Ser Thr Ala Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu
Ser Lys Val 225 230 235 240 Asp Ala Val Arg Ser Ser Leu Gly Ala Ile
Gln Asn Arg Phe Asp Ser 245 250 255 Ala Ile Thr Asn Leu 260
41849DNASalmonella dublin 41atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccga tggcacaagt cattaataca 120aacagcctgt cgctgttgac
ccagaataac ctgaacaaat ctcagtcctc actgagttcc 180gctattgagc
gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga tgcggcaggc
240caggcgattg ctaaccgctt cacttctaat atcaaaggcc tgactcaggc
ttcccgtaac 300gctaacgacg gcatttctat tgcgcagacc actgaaggtg
cgctgaatga aatcaacaac 360aacctgcagc gtgtgcgtga gttgtctgtt
caggccacta acgggactaa ctctgattcc 420gatctgaaat ctatccagga
tgaaattcag caacgtctgg aagaaatcga tcgcgtttct 480aatcagatcc
cgggaatttc cggtggtggt ggtggaattc tagactccat gggtacatta
540atcaatgaag acgctgccgc agccaagaaa agtaccgcta acccactggc
ttcaattgat 600tctgcattgt caaaagtgga cgcagttcgt tcttctctgg
gggcaattca aaaccgtttt 660gattcagcca ttaccaacct tggcaatacg
gtaaccaatc tgaactccgc gcgtagccgt 720atcgaagatg ctgactatgc
aacggaagtt tctaatatgt ctaaagcgca gattctgcag 780caggctggta
cttccgttct ggcgcaggct aaccaggttc cgcaaaacgt cctctcttta 840ctgcgttag
84942282PRTSalmonella dublin 42Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu Ile Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn Gln Ile Pro
Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser 165 170 175 Met Gly
Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys Ser Thr 180 185 190
Ala Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys Val Asp Ala 195
200 205 Val Arg Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala
Ile 210 215 220 Thr Asn Leu Gly Asn Thr Val Thr Asn Leu Asn Ser Ala
Arg Ser Arg 225 230 235 240 Ile Glu Asp Ala Asp Tyr Ala Thr Glu Val
Ser Asn Met Ser Lys Ala 245 250 255 Gln Ile Leu Gln Gln Ala Gly Thr
Ser Val Leu Ala Gln Ala Asn Gln 260 265 270 Val Pro Gln Asn Val Leu
Ser Leu Leu Arg 275 280 43690DNASalmonella dublin 43atgcggggtt
ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg
atctgtacga cgatgacgat aaggatccgt tcacttctaa tatcaaaggc
120ctgactcagg cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac
cactgaaggt 180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg
agttgtctgt tcaggccact 240aacgggacta actctgattc cgatctgaaa
tctatccagg atgaaattca gcaacgtctg 300gaagaaatcg atcgcgtttc
taatcagatc ccgggaattt ccggtggtgg tggtggaatt 360ctagactcca
tgggtacatt aatcaatgaa gacgctgccg cagccaagaa aagtaccgct
420aacccactgg cttcaattga ttctgcattg tcaaaagtgg acgcagttcg
ttcttctctg 480ggggcaattc aaaaccgttt tgattcagcc attaccaacc
ttggcaatac ggtaaccaat 540ctgaactccg cgcgtagccg tatcgaagat
gctgactatg caacggaagt ttctaatatg 600tctaaagcgc agattctgca
gcaggctggt acttccgttc tggcgcaggc taaccaggtt 660ccgcaaaacg
tcctctcttt actgcgttag 69044229PRTSalmonella dublin 44Met Arg Gly
Ser His His His His His His Gly Met Ala Ser Met Thr 1 5 10 15 Gly
Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25
30 Pro Phe Thr Ser Asn Ile Lys Gly Leu Thr Gln Ala Ser Arg Asn Ala
35 40 45 Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly Ala Leu
Asn Glu 50 55 60 Ile Asn Asn Asn Leu Gln Arg Val Arg Glu Leu Ser
Val Gln Ala Thr 65 70 75 80 Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys
Ser Ile Gln Asp Glu Ile 85 90 95 Gln Gln Arg Leu Glu Glu Ile Asp
Arg Val Ser Asn Gln Ile Pro Gly 100 105 110 Ile Ser Gly Gly Gly Gly
Gly Ile Leu Asp Ser Met Gly Thr Leu Ile 115 120 125 Asn Glu Asp Ala
Ala Ala Ala Lys Lys Ser Thr Ala Asn Pro Leu Ala 130 135 140 Ser Ile
Asp Ser Ala Leu Ser Lys Val Asp Ala Val Arg Ser Ser Leu 145 150 155
160 Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala Ile Thr Asn Leu Gly Asn
165 170 175 Thr Val Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile Glu Asp
Ala Asp 180 185 190 Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln
Ile Leu Gln Gln 195 200 205 Ala Gly Thr Ser Val Leu Ala Gln Ala Asn
Gln Val Pro Gln Asn Val 210 215 220 Leu Ser Leu Leu Arg 225
45684DNASalmonella dublin 45atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccga tggcacaagt cattaataca 120aacagcctgt cgctgttgac
ccagaataac ctgaacaaat ctcagtcctc actgagttcc 180gctattgagc
gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga tgcggcaggc
240caggcgattg ctaaccgctt cacttctaat atcaaaggcc tgactcaggc
ttcccgtaac 300gctaacgacg gcatttctat tgcgcagacc actgaaggtg
cgctgaatga aatcaacaac 360aacctgcagc gtgtgcgtga gttgtctgtt
caggccacta acgggactaa ctctgattcc 420gatctgaaat ctatccagga
tgaaattcag caacgtctgg aagaaatcga tcgcgtttct 480aatcagatcc
cgggaatttc cggtggtggt ggtggaattc tagactccat gggtacatta
540atcaatgaag acgctgccgc agccaagaaa agtaccgcta acccactggc
ttcaattgat 600tctgcattgt caaaagtgga cgcagttcgt tcttctctgg
gggcaattca aaaccgtttt 660gattcagcca ttaccaacct ttag
68446227PRTSalmonella dublin 46Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Asn Gly Thr Asn
Ser Asp Ser Asp Leu Lys Ser 130 135 140 Ile Gln Asp Glu Ile Gln Gln
Arg Leu Glu Glu Ile Asp Arg Val Ser 145 150 155 160 Asn Gln Ile Pro
Gly Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser 165 170 175 Met Gly
Thr Leu Ile Asn Glu Asp Ala Ala Ala Ala Lys Lys Ser Thr 180 185 190
Ala Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys Val Asp Ala 195
200 205 Val Arg Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp Ser Ala
Ile 210 215 220 Thr Asn Leu 225 47525DNASalmonella dublin
47atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa
60atgggtcggg atctgtacga cgatgacgat aaggatccgt tcacttctaa tatcaaaggc
120ctgactcagg cttcccgtaa cgctaacgac ggcatttcta ttgcgcagac
cactgaaggt 180gcgctgaatg aaatcaacaa caacctgcag cgtgtgcgtg
agttgtctgt tcaggccact 240aacgggacta actctgattc cgatctgaaa
tctatccagg atgaaattca gcaacgtctg 300gaagaaatcg atcgcgtttc
taatcagatc ccgggaattt ccggtggtgg tggtggaatt 360ctagactcca
tgggtacatt aatcaatgaa gacgctgccg cagccaagaa aagtaccgct
420aacccactgg cttcaattga ttctgcattg tcaaaagtgg acgcagttcg
ttcttctctg 480ggggcaattc aaaaccgttt tgattcagcc attaccaacc tttag
52548174PRTSalmonella dublin 48Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Phe Thr Ser Asn
Ile Lys Gly Leu Thr Gln Ala Ser Arg Asn Ala 35 40 45 Asn Asp Gly
Ile Ser Ile Ala Gln Thr Thr Glu Gly Ala Leu Asn Glu 50 55 60 Ile
Asn Asn Asn Leu Gln Arg Val Arg Glu Leu Ser Val Gln Ala Thr 65 70
75 80 Asn Gly Thr Asn Ser Asp Ser Asp Leu Lys Ser Ile Gln Asp Glu
Ile 85 90 95 Gln Gln Arg Leu Glu Glu Ile Asp Arg Val Ser Asn Gln
Ile Pro Gly 100 105 110 Ile Ser Gly Gly Gly Gly Gly Ile Leu Asp Ser
Met Gly Thr Leu Ile 115 120 125 Asn Glu Asp Ala Ala Ala Ala Lys Lys
Ser Thr Ala Asn Pro Leu Ala 130 135 140 Ser Ile Asp Ser Ala Leu Ser
Lys Val Asp Ala Val Arg Ser Ser Leu 145 150 155 160 Gly Ala Ile Gln
Asn Arg Phe Asp Ser Ala Ile Thr Asn Leu 165 170 49762DNASalmonella
dublin 49atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg
tggacagcaa 60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt
cattaataca 120aacagcctgt cgctgttgac ccagaataac ctgaacaaat
ctcagtcctc actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt
atcaacagcg cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt
cacttctaat atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgacg
gcatttctat tgcgcagacc actgaaggtg cgctgaatga aatcaacaac
360aacctgcagc gtgtgcgtga gttgtctgtt caggccacta tcccgggaat
ttccggtggt 420ggtggtggaa ttctagactc catgggtaca ttaatcaatg
aagacgctgc cgcagccaag 480aaaagtaccg ctaacccact ggcttcaatt
gattctgcat tgtcaaaagt ggacgcagtt 540cgttcttctc tgggggcaat
tcaaaaccgt tttgattcag ccattaccaa ccttggcaat 600acggtaacca
atctgaactc cgcgcgtagc cgtatcgaag atgctgacta tgcaacggaa
660gtttctaata tgtctaaagc gcagattctg cagcaggctg gtacttccgt
tctggcgcag 720gctaaccagg ttccgcaaaa cgtcctctct ttactgcgtt ag
76250253PRTSalmonella dublin 50Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu 100 105 110 Gly Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu 115 120 125 Ser Val Gln Ala Thr Ile Pro Gly Ile
Ser Gly Gly Gly Gly Gly Ile 130 135 140 Leu Asp Ser Met Gly Thr Leu
Ile Asn Glu Asp Ala Ala Ala Ala Lys 145 150 155 160 Lys Ser Thr Ala
Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu Ser Lys 165 170 175 Val Asp
Ala Val Arg Ser Ser Leu Gly Ala Ile Gln Asn Arg Phe Asp 180 185 190
Ser Ala Ile Thr Asn Leu Gly Asn Thr Val Thr Asn Leu Asn Ser Ala 195
200 205 Arg Ser Arg Ile Glu Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn
Met 210 215 220 Ser Lys Ala Gln Ile Leu Gln Gln Ala Gly Thr Ser Val
Leu Ala Gln 225 230 235 240 Ala Asn Gln Val Pro Gln Asn Val Leu Ser
Leu Leu Arg 245 250 51597DNASalmonella dublin 51atgcggggtt
ctcatcatca tcatcatcat ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg
atctgtacga cgatgacgat aaggatccga tggcacaagt cattaataca
120aacagcctgt cgctgttgac ccagaataac ctgaacaaat ctcagtcctc
actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt atcaacagcg
cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt cacttctaat
atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgacg gcatttctat
tgcgcagacc actgaaggtg cgctgaatga aatcaacaac 360aacctgcagc
gtgtgcgtga gttgtctgtt caggccacta tcccgggaat ttccggtggt
420ggtggtggaa ttctagactc catgggtaca ttaatcaatg aagacgctgc
cgcagccaag 480aaaagtaccg ctaacccact ggcttcaatt gattctgcat
tgtcaaaagt ggacgcagtt 540cgttcttctc tgggggcaat tcaaaaccgt
tttgattcag ccattaccaa cctttag 59752198PRTSalmonella dublin 52Met
Arg Gly Ser His His His His His His Gly Met Ala Ser Met Thr 1 5 10
15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys Asp
20 25 30 Pro Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu Leu
Thr Gln 35 40 45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser Ser
Ala Ile Glu Arg 50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser Ala
Lys Asp Asp Ala Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe Thr
Ser Asn Ile Lys Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala Asn
Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu 100 105 110 Gly Ala Leu Asn
Glu Ile Asn Asn Asn Leu Gln Arg Val Arg Glu Leu 115
120 125 Ser Val Gln Ala Thr Ile Pro Gly Ile Ser Gly Gly Gly Gly Gly
Ile 130 135 140 Leu Asp Ser Met Gly Thr Leu Ile Asn Glu Asp Ala Ala
Ala Ala Lys 145 150 155 160 Lys Ser Thr Ala Asn Pro Leu Ala Ser Ile
Asp Ser Ala Leu Ser Lys 165 170 175 Val Asp Ala Val Arg Ser Ser Leu
Gly Ala Ile Gln Asn Arg Phe Asp 180 185 190 Ser Ala Ile Thr Asn Leu
195 53672DNASalmonella dublin 53atgcggggtt ctcatcatca tcatcatcat
ggtatggcta gcatgactgg tggacagcaa 60atgggtcggg atctgtacga cgatgacgat
aaggatccga tggcacaagt cattaataca 120aacagcctgt cgctgttgac
ccagaataac ctgaacaaat ctcagtcctc actgagttcc 180gctattgagc
gtctgtcctc tggtctgcgt atcaacagcg cgaaagacga tgcggcaggc
240caggcgattg ctaaccgctt cacttctaat atcaaaggcc tgactcaggc
ttcccgtaac 300gctaacgaca tcccgggaat ttccggtggt ggtggtggaa
ttctagactc catgggtaca 360ttaatcaatg aagacgctgc cgcagccaag
aaaagtaccg ctaacccact ggcttcaatt 420gattctgcat tgtcaaaagt
ggacgcagtt cgttcttctc tgggggcaat tcaaaaccgt 480tttgattcag
ccattaccaa ccttggcaat acggtaacca atctgaactc cgcgcgtagc
540cgtatcgaag atgctgacta tgcaacggaa gtttctaata tgtctaaagc
gcagattctg 600cagcaggctg gtacttccgt tctggcgcag gctaaccagg
ttccgcaaaa cgtcctctct 660ttactgcgtt ag 67254223PRTSalmonella dublin
54Met Arg Gly Ser His His His His His His Gly Met Ala Ser Met Thr 1
5 10 15 Gly Gly Gln Gln Met Gly Arg Asp Leu Tyr Asp Asp Asp Asp Lys
Asp 20 25 30 Pro Met Ala Gln Val Ile Asn Thr Asn Ser Leu Ser Leu
Leu Thr Gln 35 40 45 Asn Asn Leu Asn Lys Ser Gln Ser Ser Leu Ser
Ser Ala Ile Glu Arg 50 55 60 Leu Ser Ser Gly Leu Arg Ile Asn Ser
Ala Lys Asp Asp Ala Ala Gly 65 70 75 80 Gln Ala Ile Ala Asn Arg Phe
Thr Ser Asn Ile Lys Gly Leu Thr Gln 85 90 95 Ala Ser Arg Asn Ala
Asn Asp Ile Pro Gly Ile Ser Gly Gly Gly Gly 100 105 110 Gly Ile Leu
Asp Ser Met Gly Thr Leu Ile Asn Glu Asp Ala Ala Ala 115 120 125 Ala
Lys Lys Ser Thr Ala Asn Pro Leu Ala Ser Ile Asp Ser Ala Leu 130 135
140 Ser Lys Val Asp Ala Val Arg Ser Ser Leu Gly Ala Ile Gln Asn Arg
145 150 155 160 Phe Asp Ser Ala Ile Thr Asn Leu Gly Asn Thr Val Thr
Asn Leu Asn 165 170 175 Ser Ala Arg Ser Arg Ile Glu Asp Ala Asp Tyr
Ala Thr Glu Val Ser 180 185 190 Asn Met Ser Lys Ala Gln Ile Leu Gln
Gln Ala Gly Thr Ser Val Leu 195 200 205 Ala Gln Ala Asn Gln Val Pro
Gln Asn Val Leu Ser Leu Leu Arg 210 215 220 55507DNASalmonella
dublin 55atgcggggtt ctcatcatca tcatcatcat ggtatggcta gcatgactgg
tggacagcaa 60atgggtcggg atctgtacga cgatgacgat aaggatccga tggcacaagt
cattaataca 120aacagcctgt cgctgttgac ccagaataac ctgaacaaat
ctcagtcctc actgagttcc 180gctattgagc gtctgtcctc tggtctgcgt
atcaacagcg cgaaagacga tgcggcaggc 240caggcgattg ctaaccgctt
cacttctaat atcaaaggcc tgactcaggc ttcccgtaac 300gctaacgaca
tcccgggaat ttccggtggt ggtggtggaa ttctagactc catgggtaca
360ttaatcaatg aagacgctgc cgcagccaag aaaagtaccg ctaacccact
ggcttcaatt 420gattctgcat tgtcaaaagt ggacgcagtt cgttcttctc
tgggggcaat tcaaaaccgt 480tttgattcag ccattaccaa cctttag
50756168PRTSalmonella dublin 56Met Arg Gly Ser His His His His His
His Gly Met Ala Ser Met Thr 1 5 10 15 Gly Gly Gln Gln Met Gly Arg
Asp Leu Tyr Asp Asp Asp Asp Lys Asp 20 25 30 Pro Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln 35 40 45 Asn Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg 50 55 60 Leu
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly 65 70
75 80 Gln Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln 85 90 95 Ala Ser Arg Asn Ala Asn Asp Ile Pro Gly Ile Ser Gly
Gly Gly Gly 100 105 110 Gly Ile Leu Asp Ser Met Gly Thr Leu Ile Asn
Glu Asp Ala Ala Ala 115 120 125 Ala Lys Lys Ser Thr Ala Asn Pro Leu
Ala Ser Ile Asp Ser Ala Leu 130 135 140 Ser Lys Val Asp Ala Val Arg
Ser Ser Leu Gly Ala Ile Gln Asn Arg 145 150 155 160 Phe Asp Ser Ala
Ile Thr Asn Leu 165 57174PRTSalmonella enterica 57Met Ala Gln Val
Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln Asn 1 5 10 15 Asn Leu
Asn Lys Ser Gln Ser Ser Leu Ser Ser Ala Ile Glu Arg Leu 20 25 30
Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35
40 45 Ala Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr Gln
Ala 50 55 60 Ser Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln Thr
Thr Glu Gly 65 70 75 80 Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln Arg
Val Arg Glu Leu Ser 85 90 95 Val Gln Ala Thr Asn Gly Thr Asn Ser
Asp Ser Asp Leu Lys Ser Ile 100 105 110 Gln Asp Glu Ile Gln Gln Arg
Leu Glu Glu Ile Asp Arg Val Ser Asn 115 120 125 Gln Thr Gln Phe Asn
Gly Val Lys Val Leu Ser Gln Asp Asn Gln Met 130 135 140 Lys Ile Gln
Val Gly Ala Asn Asp Gly Glu Thr Ile Thr Ile Asp Leu 145 150 155 160
Gln Lys Ile Asp Val Lys Ser Leu Gly Leu Asp Gly Phe Asn 165 170
58189PRTPseudomonas aeruginosa 58Met Ala Leu Thr Val Asn Thr Asn
Ile Ala Ser Leu Asn Thr Gln Arg 1 5 10 15 Asn Leu Asn Ala Ser Ser
Asn Asp Leu Asn Thr Ser Leu Gln Arg Leu 20 25 30 Thr Thr Gly Tyr
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Leu 35 40 45 Gln Ile
Ser Asn Arg Leu Ser Asn Gln Ile Ser Gly Leu Asn Val Ala 50 55 60
Thr Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Ala Glu Gly 65
70 75 80 Ala Leu Gln Gln Ser Thr Asn Ile Leu Gln Arg Ile Arg Asp
Leu Ala 85 90 95 Leu Gln Ser Ala Asn Gly Ser Asn Ser Asp Ala Asp
Arg Ala Ala Leu 100 105 110 Gln Lys Glu Val Ala Ala Gln Gln Ala Glu
Leu Thr Arg Ile Ser Asp 115 120 125 Thr Thr Thr Phe Gly Gly Arg Lys
Leu Leu Asp Gly Ser Phe Gly Thr 130 135 140 Thr Ser Phe Gln Val Gly
Ser Asn Ala Tyr Glu Thr Ile Asp Ile Ser 145 150 155 160 Leu Gln Asn
Ala Ser Ala Ser Ala Ile Gly Ser Tyr Gln Val Gly Ser 165 170 175 Asn
Gly Ala Gly Thr Val Ala Ser Val Ala Gly Thr Ala 180 185
59179PRTLegionella pneumophila 59Met Ala Gln Val Ile Asn Thr Asn
Val Ala Ser Leu Thr Ala Gln Arg 1 5 10 15 Asn Leu Gly Val Ser Gly
Asn Met Met Gln Thr Ser Ile Gln Arg Leu 20 25 30 Ser Ser Gly Leu
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Leu 35 40 45 Ala Ile
Ser Gln Arg Met Thr Ala Gln Ile Arg Gly Met Asn Gln Ala 50 55 60
Val Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Val Ala Glu Gly 65
70 75 80 Ala Met Gln Glu Thr Thr Asn Ile Leu Gln Arg Met Arg Glu
Leu Ser 85 90 95 Val Gln Ala Ala Asn Ser Thr Asn Asn Ser Ser Asp
Arg Ala Ser Ile 100 105 110 Gln Ser Glu Ile Ser Gln Leu Lys Ser Glu
Leu Glu Arg Ile Ala Gln 115 120 125 Asn Thr Glu Phe Asn Gly Gln Arg
Ile Leu Asp Gly Ser Phe Ser Gly 130 135 140 Ala Ser Phe Gln Val Gly
Ala Asn Ser Asn Gln Thr Ile Asn Phe Ser 145 150 155 160 Ile Gly Ser
Ile Lys Ala Ser Ser Ile Gly Gly Ile Ala Thr Ala Thr 165 170 175 Gly
Thr Glu 60174PRTEscherichia coli 60Met Ala Gln Val Ile Asn Thr Asn
Ser Leu Ser Leu Leu Thr Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln
Ser Ser Leu Ser Ser Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile
Ala Asn Arg Phe Thr Ala Asn Ile Lys Gly Leu Thr Gln Ala 50 55 60
Ser Arg Asn Ala Asn Asp Gly Ile Ser Val Ala Gln Thr Thr Glu Gly 65
70 75 80 Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln Arg Val Arg Glu
Leu Thr 85 90 95 Val Gln Ala Thr Asn Gly Thr Asn Ser Asp Ser Asp
Leu Ser Ser Ile 100 105 110 Gln Ala Glu Ile Thr Gln Arg Leu Glu Glu
Ile Asp Arg Val Ser Glu 115 120 125 Gln Thr Gln Phe Asn Gly Val Lys
Val Leu Ala Glu Asn Asn Glu Met 130 135 140 Lys Ile Gln Val Gly Ala
Asn Asp Gly Glu Thr Ile Thr Ile Asn Leu 145 150 155 160 Ala Lys Ile
Asp Ala Lys Thr Leu Gly Leu Asp Gly Phe Asn 165 170
61173PRTSerratia marcescens 61Met Ala Gln Val Ile Asn Thr Asn Ser
Leu Ser Leu Met Ala Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln Ser
Ser Leu Gly Thr Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu Arg
Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ser
Asn Arg Phe Thr Ala Asn Ile Lys Gly Leu Thr Gln Ala 50 55 60 Ser
Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Thr Glu Gly 65 70
75 80 Ala Leu Asn Glu Val Asn Asp Asn Leu Gln Asn Ile Arg Arg Leu
Thr 85 90 95 Val Gln Ala Gln Asn Gly Ser Asn Ser Thr Ser Asp Leu
Lys Ser Ile 100 105 110 Gln Asp Glu Ile Thr Gln Arg Leu Ser Glu Ile
Asn Arg Ile Ser Glu 115 120 125 Gln Thr Asp Phe Asn Gly Val Lys Val
Leu Ser Ser Asp Gln Lys Leu 130 135 140 Thr Ile Gln Val Gly Ala Asn
Asp Gly Glu Thr Thr Asp Ile Asp Leu 145 150 155 160 Lys Lys Ile Asp
Ala Lys Gln Leu Gly Met Asp Thr Phe 165 170 62168PRTBacillus
subtilis 62Met Arg Ile Asn His Asn Ile Ala Ala Leu Asn Thr Ser Arg
Gln Leu 1 5 10 15 Asn Ala Gly Ser Asn Ser Ala Ala Lys Asn Met Glu
Lys Leu Ser Ser 20 25 30 Gly Leu Arg Ile Asn Arg Ala Gly Asp Asp
Ala Ala Gly Leu Ala Ile 35 40 45 Ser Glu Lys Met Arg Ser Gln Ile
Arg Gly Leu Asp Met Ala Ser Lys 50 55 60 Asn Ala Gln Asp Gly Ile
Ser Leu Ile Gln Thr Ser Glu Gly Ala Leu 65 70 75 80 Asn Glu Thr His
Ser Ile Leu Gln Arg Met Ser Glu Leu Ala Thr Gln 85 90 95 Ala Ala
Asn Asp Thr Asn Thr Asp Ser Asp Arg Ser Glu Leu Gln Lys 100 105 110
Glu Met Asp Gln Leu Ala Ser Glu Val Thr Arg Ile Ser Thr Asp Thr 115
120 125 Glu Phe Asn Thr Lys Lys Leu Leu Asp Gly Thr Ala Gln Asn Leu
Thr 130 135 140 Phe Gln Ile Gly Ala Asn Glu Gly Gln Thr Met Ser Leu
Ser Ile Asn 145 150 155 160 Lys Met Asp Ser Glu Ser Leu Lys 165
63192PRTListeria monocytogenes 63Met Lys Val Asn Thr Asn Ile Ile
Ser Leu Lys Thr Gln Glu Tyr Leu 1 5 10 15 Arg Lys Asn Asn Glu Gly
Met Thr Gln Ala Gln Glu Arg Leu Ala Ser 20 25 30 Gly Lys Arg Ile
Asn Ser Ser Leu Asp Asp Ala Ala Gly Leu Ala Val 35 40 45 Val Thr
Arg Met Asn Val Lys Ser Thr Gly Leu Asp Ala Ala Ser Lys 50 55 60
Asn Ser Ser Met Gly Ile Asp Leu Leu Gln Thr Ala Asp Ser Ala Leu 65
70 75 80 Ser Ser Met Ser Ser Ile Leu Gln Arg Met Arg Gln Leu Ala
Val Gln 85 90 95 Ser Ser Asn Gly Ser Phe Ser Asp Glu Asp Arg Lys
Gln Tyr Thr Ala 100 105 110 Glu Phe Gly Ser Leu Ile Lys Glu Leu Asp
His Val Ala Asp Thr Thr 115 120 125 Asn Tyr Asn Asn Ile Lys Leu Leu
Asp Gln Thr Ala Thr Gly Ala Ala 130 135 140 Thr Gln Val Ser Ile Gln
Ala Ser Asp Lys Ala Asn Asp Leu Ile Asn 145 150 155 160 Ile Asp Leu
Phe Asn Ala Lys Gly Leu Ser Ala Gly Thr Ile Thr Leu 165 170 175 Gly
Ser Gly Ser Thr Val Ala Gly Tyr Ser Ala Leu Ser Val Ala Asp 180 185
190 64174PRTShigella sonnei 64Met Ala Gln Val Ile Asn Thr Asn Ser
Leu Ser Leu Leu Thr Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln Ser
Ser Leu Ser Ser Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu Arg
Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ala
Asn Arg Phe Thr Ala Asn Ile Lys Gly Leu Thr Gln Ala 50 55 60 Ser
Arg Asn Ala Asn Asp Gly Ile Ser Val Ala Gln Thr Thr Glu Gly 65 70
75 80 Ala Leu Ser Glu Ile Asn Asn Asn Leu Gln Arg Ile Arg Glu Leu
Ser 85 90 95 Val Gln Ala Thr Asn Gly Thr Asn Ser Asp Ser Asp Leu
Asn Ser Ile 100 105 110 Gln Asp Glu Ile Thr Gln Arg Leu Ser Glu Ile
Asp Arg Val Ser Asn 115 120 125 Gln Thr Gln Phe Asn Gly Val Lys Val
Leu Ala Ser Asp Gln Thr Met 130 135 140 Lys Ile Gln Val Gly Ala Asn
Asp Gly Glu Thr Ile Glu Ile Ala Leu 145 150 155 160 Asp Lys Ile Asp
Ala Lys Thr Leu Gly Leu Asp Asn Phe Ser 165 170
65174PRTEdwardsiella tarda 65Met Ala Gln Val Ile Asn Thr Asn Ser
Leu Ser Leu Met Ala Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln Ser
Ala Leu Gly Thr Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu Arg
Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ser
Asn Arg Phe Thr Ala Asn Ile Asn Gly Leu Thr Gln Ala 50 55 60 Ser
Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Thr Glu Gly 65 70
75 80 Ala Leu Asn Glu Val Asn Asp Asn Leu Gln Asn Ile Arg Arg Leu
Thr 85 90 95 Val Gln Ala Gln Asn Gly Ser Asn Ser Ser Ser Asp Leu
Gln Ser Ile 100 105 110 Gln Asp Glu Ile Thr Gln Arg Leu Ser Glu Ile
Asp Arg Ile Ser Gln 115 120 125 Gln Thr Asp Phe Asn Gly Val Lys Val
Leu Ser Lys Asp Gln Lys Leu 130 135 140 Thr Ile Gln Val Gly Ala Asn
Asp Gly Glu Thr Ile Asp Ile Asp Leu 145 150 155 160 Lys Asn Ile Asn
Ala Gln Ser Leu Gly Leu Asp Lys Phe Asn 165 170
66186PRTAcidovorax avenae 66Met Ala Ser Thr Ile Asn Thr Asn Val Ser
Ser Leu Thr Ala Gln Arg 1 5 10 15 Asn Leu Ser Leu Ser Gln Ser Ser
Leu Asn Thr Ser Ile Gln Arg Leu 20 25 30 Ser Ser Gly Leu Arg Ile
Asn Ser Ala Lys Asp Asp Ala Ala Gly Leu 35 40 45 Ala Ile Ser Glu
Arg Phe Thr Ser Gln Ile Arg Gly Leu Asn Gln Ala 50 55 60 Val Arg
Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Ala Glu Gly 65 70 75 80
Ala Leu Lys Ser Thr Gly Asp Ile Leu Gln Arg Val Arg Glu Leu Ala 85
90 95 Val Gln Ser Ala Asn Ala Thr Asn Ser Ser Gly Asp Arg Lys Ala
Ile 100 105 110 Gln Ala Glu Val Gly Gln Leu Leu Ser Glu Met Asp Arg
Ile Ala Gly 115 120 125 Asn Thr Glu Phe Asn Gly Gln Lys Leu Leu Asp
Gly Ser Phe Gly Ser 130 135 140 Ala Thr Phe Gln Val Gly Ala Asn Ala
Asn Gln Thr Ile Thr Ala Thr 145 150 155 160 Thr Gly Asn Phe Arg Thr
Asn Asn Tyr Gly Ala Gln Leu Thr Ala Ser 165 170 175 Ala Ser Gly Ala
Ala Thr Ser Gly Ala Ser 180 185 67173PRTYersinia pestis 67Met Ala
Val Ile Asn Thr Asn Ser Leu Ser Leu Leu Thr Gln Asn Asn 1 5 10 15
Leu Asn Lys Ser Gln Ser Ser Leu Gly Thr Ala Ile Glu Arg Leu Ser 20
25 30 Ser Gly Leu Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln
Ala 35 40 45 Ile Ala Asn Arg Phe Thr Ser Asn Ile Lys Gly Leu Thr
Gln Ala Ala 50 55 60 Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln
Thr Thr Glu Gly Ser 65 70 75 80 Leu Asn Glu Ile Asn Asn Asn Leu Gln
Arg Val Arg Glu Leu Thr Val 85 90 95 Gln Ala Gln Asn Gly Ser Asn
Ser Ser Ser Asp Leu Asp Ser Ile Gln 100 105 110 Asp Glu Ile Ser Leu
Arg Leu Ala Glu Ile Asp Arg Val Ser Asp Gln 115 120 125 Thr Gln Phe
Asn Gly Lys Lys Val Leu Ala Glu Asn Thr Thr Met Ser 130 135 140 Ile
Gln Val Gly Ala Asn Asp Gly Glu Thr Ile Asp Ile Asn Leu Gln 145 150
155 160 Lys Ile Asp Ser Lys Ser Leu Gly Leu Gly Ser Tyr Ser 165 170
68174PRTPhotorhabdus luminescens 68Met Ala Gln Val Ile Asn Thr Asn
Ser Leu Ser Leu Leu Thr Gln Asn 1 5 10 15 Asn Leu Asn Arg Ser Gln
Gly Thr Leu Gly Ser Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile
Ala Asn Arg Phe Thr Ala Asn Val Arg Gly Leu Thr Gln Ala 50 55 60
Ala Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly 65
70 75 80 Ala Leu Asn Glu Ile Asn Thr Asn Leu Gln Arg Ile Arg Glu
Leu Thr 85 90 95 Val Gln Ser Gln Asn Gly Ser Asn Ser Glu Ser Asp
Ile Lys Ser Ile 100 105 110 Gln Glu Glu Val Thr Gln Arg Leu Lys Glu
Ile Asp Arg Ile Ser Glu 115 120 125 Gln Thr Gln Phe Asn Gly Val Arg
Val Leu Arg Glu Asp Ser Lys Met 130 135 140 Thr Ile Gln Val Gly Ala
Asn Asp Asn Glu Val Ile Asp Ile Asp Leu 145 150 155 160 Lys Lys Ile
Asp Lys Glu Ala Leu Asn Leu Gly Lys Phe Thr 165 170
69189PRTRhodobacter sphaeroides 69Met Thr Thr Ile Asn Thr Asn Ile
Gly Ala Ile Ala Ala Gln Ala Asn 1 5 10 15 Met Thr Lys Val Asn Asp
Gln Phe Asn Thr Ala Met Thr Arg Leu Ser 20 25 30 Thr Gly Leu Arg
Ile Asn Ala Ala Lys Asp Asp Ala Ala Gly Met Ala 35 40 45 Ile Gly
Glu Lys Met Thr Ala Gln Val Met Gly Leu Asn Gln Ala Ile 50 55 60
Arg Asn Ala Gln Asp Gly Lys Asn Leu Val Asp Thr Thr Glu Gly Ala 65
70 75 80 His Val Glu Val Ser Ser Met Leu Gln Arg Leu Arg Glu Leu
Ala Val 85 90 95 Gln Ser Ser Asn Asp Thr Asn Thr Ala Ala Asp Arg
Gly Ser Leu Ala 100 105 110 Ala Glu Gly Lys Gln Leu Ile Ala Glu Ile
Asn Arg Val Ala Glu Ser 115 120 125 Thr Thr Phe Asn Gly Met Lys Val
Leu Asp Gly Ser Phe Thr Gly Lys 130 135 140 Gln Leu Gln Ile Gly Ala
Asp Ser Gly Gln Thr Met Ala Ile Asn Val 145 150 155 160 Asp Ser Ala
Ala Ala Thr Asp Ile Gly Ala His Lys Ile Ser Ser Ala 165 170 175 Ser
Thr Val Val Ala Asp Ala Ala Leu Thr Asp Thr Thr 180 185
70175PRTXenorhabdus nematophila 70Met Ala Ser Val Ile Asn Thr Asn
Asp Ser Ala Leu Leu Ala Gln Asn 1 5 10 15 Asn Leu Thr Lys Ser Lys
Gly Ile Leu Gly Ser Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile
Ala Asn Arg Phe Thr Ala Asn Val Lys Gly Leu Thr Gln Ala 50 55 60
Ala Arg Asn Ala Asn Asp Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly 65
70 75 80 Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln Arg Ile Arg Glu
Leu Thr 85 90 95 Val Gln Ser Glu Asn Gly Ser Asn Ser Lys Ser Asp
Leu Asp Ser Ile 100 105 110 Gln Lys Glu Val Thr Gln Arg Leu Glu Glu
Ile Asp Arg Ile Ser Thr 115 120 125 Gln Thr Gln Phe Asn Gly Ile Lys
Val Leu Asn Gly Asp Val Thr Glu 130 135 140 Met Lys Ile Gln Val Gly
Ala Asn Asp Asn Glu Thr Ile Gly Ile Lys 145 150 155 160 Leu Gly Lys
Ile Asn Ser Glu Lys Leu Asn Leu Lys Glu Phe Ser 165 170 175
71175PRTProteus mirabilis 71Met Ala Gln Val Ile Asn Thr Asn Tyr Leu
Ser Leu Val Thr Gln Asn 1 5 10 15 Asn Leu Asn Arg Ser Gln Ser Ala
Leu Gly Asn Ala Ile Glu Arg Leu 20 25 30 Ser Ser Gly Met Arg Ile
Asn Ser Ala Lys Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ala Asn
Arg Phe Thr Ser Asn Ile Asn Gly Leu Thr Gln Ala 50 55 60 Ser Arg
Asn Ala Asn Asp Gly Ile Ser Val Ser Gln Thr Thr Glu Gly 65 70 75 80
Ala Leu Asn Glu Ile Asn Asn Asn Leu Gln Arg Ile Arg Glu Leu Thr 85
90 95 Val Gln Ala Lys Asn Gly Thr Asn Ser Asn Ser Asp Ile Asn Ser
Ile 100 105 110 Gln Asn Glu Val Asn Gln Arg Leu Asp Glu Ile Asn Arg
Val Ser Glu 115 120 125 Gln Thr Gln Phe Asn Gly Val Lys Val Leu Ser
Gly Glu Lys Ser Lys 130 135 140 Met Thr Ile Gln Val Gly Thr Asn Asp
Asn Glu Val Ile Glu Phe Asn 145 150 155 160 Leu Asp Lys Ile Asp Asn
Asp Thr Leu Gly Val Ala Ser Asp Lys 165 170 175
72200PRTButyrivibrio fibrisolvens 72Met Val Val Gln His Asn Met Gln
Ala Ala Asn Ala Ser Arg Met Leu 1 5 10 15 Gly Ile Thr Thr Gly Asp
Gln Ser Lys Ser Thr Glu Lys Leu Ser Ser 20 25 30 Gly Phe Lys Ile
Asn Arg Ala Ala Asp Asp Ala Ala Gly Leu Ser Ile 35 40 45 Ser Glu
Lys Met Arg Lys Gln Ile Arg Gly Leu Asp Gln Ala Ser Thr 50 55 60
Asn Ala Ser Asp Gly Ile Ser Ala Val Gln Thr Ala Glu Gly Ala Leu 65
70 75 80 Thr Glu Val His Ser Met Leu Gln Arg Met Asn Glu Leu Ala
Val Gln 85 90 95 Ala Ala Asn Gly Thr Asn Ser Glu Ser Asp Arg Ser
Ser Ile Gln Asp 100 105 110 Glu Ile Asn Gln Leu Thr Thr Glu Ile Asp
Arg Val Ala Glu Thr Thr 115 120 125 Lys Phe Asn Glu Thr Tyr Leu Leu
Lys Gly Gly Asn Gly Asp Arg Thr 130 135 140 Val Arg Val Tyr Ala His
Asp Ala Gly Leu Val Gly Ser Leu Ser Gln 145 150 155 160 Asn Thr Thr
Lys Ala Thr Phe Gln Met Arg Lys Leu Glu Ile Gly Asp 165 170 175 Ser
Tyr Thr Ile Gly Gly Thr Thr Tyr Lys Ile Gly Ala Glu Thr Val 180 185
190 Lys Glu Ala Met Thr Ala Leu Lys 195 200 73177PRTBordetella
pertussis 73Met Ala Ala Val Ile Asn Thr Asn Tyr Leu Ser Leu Val Ala
Gln Asn 1 5 10 15 Asn Leu Asn Lys Ser Gln Ser Ala Leu Gly Ser Ala
Ile Glu Arg Leu 20 25 30 Ser Ser Gly Leu Arg Ile Asn Ser Ala Lys
Asp Asp Ala Ala Gly Gln 35 40 45 Ala Ile Ala Asn Arg Phe Thr Ala
Asn Val Lys Gly Leu Thr Gln Ala 50 55 60 Ala Arg Asn Ala Asn Asp
Gly Ile Ser Ile Ala Gln Thr Thr Glu Gly 65 70 75 80 Ala Leu Asn Glu
Ile Asn Asn Asn Leu Gln Arg Ile Arg Glu Leu Thr 85 90 95 Val Gln
Ala Ser Asn Gly Thr Asn Ser Ala Ser Asp Ile Asp Ser Ile 100 105 110
Gln Gln Glu Val Asn Gln Arg Leu Glu Glu Ile Asn Arg Ile Ala Glu 115
120 125 Gln Thr Asp Phe Asn Gly Ile Lys Val Leu Lys Ser Asn Ala Thr
Asp 130 135 140 Met Thr Leu Ser Ile Gln Val Gly Ala Lys Asp Asn Glu
Thr Ile Asp 145 150 155 160 Ile Lys Ile Asp Arg Asn Ser Asn Trp Asn
Leu Tyr Asp Ala Val Gly 165 170 175 Thr 74167PRTClostridium
chauvoei 74Met Ile Ile Asn His Asn Met Asn Ala Leu Asn Ala His Arg
Asn Met 1 5 10 15 Met Gly Asn Ile Ala Thr Ala Gly Lys Ser Met Glu
Lys Leu Ser Ser 20 25 30 Gly Leu Arg Ile Asn Arg Ala Gly Asp Asp
Ala Ala Gly Leu Ala Ile 35 40 45 Ser Glu Lys Met Arg Gly Gln Ile
Arg Gly Leu Asp Gln Ala Ser Arg 50 55 60 Asn Ala Gln Asp Gly Ile
Ser Leu Ile Gln Thr Ala Glu Gly Ala Leu 65 70 75 80 Ala Glu Thr His
Ser Ile Leu Gln Arg Met Arg Glu Leu Ser Val Gln 85 90 95 Ser Ala
Asn Asp Thr Asn Val Ala Val Asp Arg Thr Ala Ile Gln Asp 100 105 110
Glu Ile Asn Ser Leu Thr Glu Glu Ile Asn Arg Ile Ser Gly Asp Thr 115
120 125 Glu Phe Asn Thr Gln Lys Leu Leu Asp Gly Gly Phe Lys Gly Glu
Phe 130 135 140 Gln Ile Gly Ala Asn Ser Asn Gln Thr Val Lys Leu Asp
Ile Gly Asn 145 150 155 160 Met Ser Ala Ala Ser Leu Gly 165
75178PRTXanthomonas campestris 75Met Ala Gln Val Ile Asn Thr Asn
Val Met Ser Leu Asn Ala Gln Arg 1 5 10 15 Asn Leu Asn Thr Asn Ser
Ser Ser Met Ala Leu Ser Ile Gln Gln Leu 20 25 30 Ser Ser Gly Lys
Arg Ile Thr Ser Ala Ser Val Asp Ala Ala Gly Leu 35 40 45 Ala Ile
Ser Glu Arg Phe Thr Thr Gln Ile Arg Gly Leu Asp Val Ala 50 55 60
Ser Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Ala Glu Gly 65
70 75 80 Ala Met Val Glu Ile Gly Asn Asn Leu Gln Arg Ile Arg Glu
Leu Ser 85 90 95 Val Gln Ser Ala Asn Ala Thr Asn Ser Ala Thr Asp
Arg Glu Ala Leu 100 105 110 Asn Ser Glu Val Lys Gln Leu Thr Ser Glu
Ile Asp Arg Val Ala Asn 115 120 125 Gln Thr Ser Phe Asn Gly Thr Lys
Leu Leu Asn Gly Asp Phe Ser Gly 130 135 140 Ala Leu Phe Gln Val Gly
Ala Asp Ala Gly Gln Thr Ile Gly Ile Asn 145 150 155 160 Ser Ile Val
Asp Ala Asn Val Asp Ser Leu Gly Lys Ala Asn Phe Ala 165 170 175 Ala
Ser 76161PRTNitrosomonas europaea 76Met Pro Gln Val Ile Asn Thr Asn
Ile Ala Ser Leu Asn Ala Gln Arg 1 5 10 15 Asn Leu Asn Val Ser Gln
Asn Ser Leu Ser Thr Ala Leu Gln Arg Leu 20 25 30 Ser Ser Gly Leu
Arg Ile Asn Ser Ala Lys Asp Asp Ala Ala Gly Leu 35 40 45 Ala Ile
Ser Glu Arg Met Thr Ser Gln Ile Arg Gly Met Asn Gln Ala 50 55 60
Ala Arg Asn Ala Asn Asp Gly Ile Ser Leu Ala Gln Thr Ala Glu Gly 65
70 75 80 Ala Leu Val Glu Ile Gly Asn Asn Leu Gln Arg Ile Arg Glu
Leu Ala 85 90 95 Val Gln Ser Ala Asn Ala Thr Asn Ser Glu Asp Asp
Arg Glu Ala Leu 100 105 110 Gln Lys Glu Val Thr Gln Leu Ile Asp Glu
Ile Gln Arg Val Gly Glu 115 120 125 Gln Thr Ser Phe Asn Gly Thr Lys
Leu Leu Asp Gly Ser Phe Ala Ser 130 135 140 Gln Ile Phe Gln Val Gly
Ala Asn Glu Gly Glu Thr Ile Asp Phe Thr 145 150 155 160 Asp
77178PRTCampylobacter lari 77Gly Phe Arg Ile Asn Thr Asn Gly Ala
Ser Leu Asn Ala Gln Val Asn 1 5 10 15 Ala Gly Leu Asn Ser Arg Asn
Leu Asp Ser Ser Leu Ala Arg Leu Ser 20 25 30 Ser Gly Leu Arg Ile
Asn Ser Ala Ala Asp Asp Ala Ser Gly Leu Ala 35 40 45 Ile Ala Asp
Ser Leu Lys Thr Gln Ala Asn Ser Leu Gly Gln Ala Ile 50 55 60 Asn
Asn Ala Asn Asp Ala Asn Ser Met Leu Gln Ile Ala Asp Lys Ala 65 70
75 80 Met Asp Glu Gln Leu Lys Ile Leu Asp Thr Ile Lys Val Lys Ala
Thr 85 90 95 Gln Ala Ala Gln Asp Gly Gln Thr Ala Lys Thr Arg Ala
Met Ile Gln 100 105 110 Gly Glu Ile Asn Lys Leu Met Glu Glu Leu Asp
Asn Ile Ala Asn Thr 115 120 125 Thr Thr Tyr Asn Gly Lys Gln Leu Leu
Ser Gly Ser Phe Ser Asn Ala 130 135 140 Gln Phe Gln Ile Gly Asp Lys
Ala Asn Gln Thr Val Asn Ala Thr Ile 145 150 155 160 Gly Ser Thr Asn
Ser Ala Lys Val Gly Gln Thr Arg Phe Glu Thr Gly 165 170 175 Ala Val
7888PRTSalmonella enterica 78Pro Leu Ala Ser Ile Asp Ser Ala Leu
Ser Lys Val Asp Ala Val Arg 1 5 10 15 Ser Ser Leu Gly Ala Ile Gln
Asn Arg Phe Asp Ser Ala Ile Thr Asn 20 25 30 Leu Gly Asn Thr Val
Thr Asn Leu Asn Ser Ala Arg Ser Arg Ile Glu 35 40 45 Asp Ala Asp
Tyr Ala Thr Glu Val Ser Asn Met Ser Lys Ala Gln Ile 50 55 60 Leu
Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val Pro 65 70
75 80 Gln Asn Val Leu Ser Leu Leu Arg 85 7988PRTPseudomonas
aeruginosa 79Ala Ile Ala Val Val Asp Asn Ala Leu Ala Ala Ile Asp
Ala Gln Arg 1 5 10 15 Ala Asp Leu Gly Ala Val Gln Asn Arg Phe Lys
Asn Thr Ile Asp
Asn 20 25 30 Leu Thr Asn Ile Ser Glu Asn Ala Thr Asn Ala Arg Ser
Arg Ile Lys 35 40 45 Asp Thr Asp Phe Ala Ala Glu Thr Ala Ala Leu
Ser Lys Asn Gln Val 50 55 60 Leu Gln Gln Ala Gly Thr Ala Ile Leu
Ala Gln Ala Asn Gln Leu Pro 65 70 75 80 Gln Ala Val Leu Ser Leu Leu
Arg 85 8089PRTLegionella pneumophila 80Ala Ile Lys Arg Ile Asp Ala
Ala Leu Asn Ser Val Asn Ser Asn Arg 1 5 10 15 Ala Asn Met Gly Ala
Leu Gln Asn Arg Phe Glu Ser Thr Ile Ala Asn 20 25 30 Leu Gln Asn
Val Ser Asp Asn Leu Ser Ala Ala Arg Ser Arg Ile Gln 35 40 45 Asp
Ala Asp Tyr Ala Ala Glu Met Ala Ser Leu Thr Lys Asn Gln Ile 50 55
60 Leu Gln Gln Ala Gly Thr Ala Met Leu Ala Gln Ala Asn Ser Leu Pro
65 70 75 80 Gln Ser Val Leu Ser Leu Leu Gly Arg 85
8189PRTEscherichia coli 81Pro Leu Glu Thr Ile Asp Lys Ala Leu Ala
Lys Val Asp Asn Leu Arg 1 5 10 15 Ser Asp Leu Gly Ala Val Gln Asn
Arg Phe Asp Ser Ala Ile Thr Asn 20 25 30 Leu Gly Asn Thr Val Asn
Asn Leu Ser Ser Ala Arg Ser Arg Ile Glu 35 40 45 Asp Ala Asp Tyr
Ala Thr Glu Val Ser Asn Met Ser Arg Ala Gln Ile 50 55 60 Leu Gln
Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Thr Thr 65 70 75 80
Gln Asn Val Leu Ser Leu Leu Gln Gly 85 8288PRTSerratia marcescens
82Pro Leu Ala Thr Leu Asp Lys Ala Leu Ala Gln Val Asp Gly Leu Arg 1
5 10 15 Ser Ser Leu Gly Ala Val Gln Asn Arg Phe Asp Ser Val Ile Asn
Asn 20 25 30 Leu Asn Ser Thr Val Asn Asn Leu Ser Ala Ser Gln Ser
Arg Ile Gln 35 40 45 Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn Met
Ser Arg Ala Asn Ile 50 55 60 Leu Gln Gln Ala Gly Thr Ser Val Leu
Ala Gln Ala Asn Gln Ser Thr 65 70 75 80 Gln Asn Val Leu Ser Leu Leu
Arg 85 8389PRTBacillus subtilis 83Ala Leu Thr Thr Ile Lys Thr Ala
Ile Asp Thr Val Ser Ser Glu Arg 1 5 10 15 Ala Lys Leu Gly Ala Val
Gln Asn Arg Leu Glu His Thr Ile Asn Asn 20 25 30 Leu Gly Thr Ser
Ser Glu Asn Leu Thr Ser Ala Glu Ser Arg Ile Arg 35 40 45 Asp Val
Asp Met Ala Ser Glu Met Met Glu Tyr Thr Lys Asn Asn Ile 50 55 60
Leu Thr Gln Ala Ser Gln Ala Met Leu Ala Gln Ala Asn Gln Gln Pro 65
70 75 80 Gln Gln Val Leu Gln Leu Leu Lys Gly 85 8490PRTLeptospira
interrogans 84Val Ile Gly Leu Ala Asp Ala Ala Leu Thr Lys Ile Met
Lys Gln Arg 1 5 10 15 Ala Asp Met Gly Ala Tyr Tyr Asn Arg Leu Glu
Tyr Thr Ala Lys Gly 20 25 30 Leu Met Gly Ala Tyr Glu Asn Met Gln
Ala Ser Glu Ser Arg Ile Arg 35 40 45 Asp Ala Asp Met Ala Glu Glu
Val Val Ser Leu Thr Thr Lys Gln Ile 50 55 60 Leu Val Gln Ser Gly
Thr Ala Met Leu Ala Gln Ala Asn Met Lys Pro 65 70 75 80 Asn Ser Val
Leu Lys Leu Leu Gln Gln Ile 85 90 8588PRTShigella sonnei 85Pro Leu
Ser Lys Leu Asp Glu Ala Leu Ala Lys Val Asp Lys Leu Arg 1 5 10 15
Ser Ser Leu Gly Ala Val Gln Asn Arg Phe Asp Ser Ala Ile Thr Asn 20
25 30 Leu Gly Asn Thr Val Asn Asp Leu Ser Ser Ala Arg Ser Arg Ile
Glu 35 40 45 Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn Met Ser Arg
Ala Gln Ile 50 55 60 Leu Gln Gln Ala Gly Thr Ser Val Leu Ala Gln
Ala Asn Gln Thr Thr 65 70 75 80 Gln Asn Val Leu Ser Leu Leu Arg 85
8688PRTEdwardsiella tarda 86Pro Leu Ala Thr Leu Asp Lys Ala Leu Ser
Gln Val Asp Asp Leu Arg 1 5 10 15 Ser Gly Leu Gly Ala Val Gln Asn
Arg Phe Asp Ser Val Ile Asn Asn 20 25 30 Leu Asn Ser Thr Val Asn
Asn Leu Ser Ala Ser Arg Ser Arg Ile Gln 35 40 45 Asp Ala Asp Tyr
Ala Thr Glu Val Ser Asn Met Ser Arg Ala Gln Ile 50 55 60 Leu Gln
Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Ser Thr 65 70 75 80
Gln Asn Val Leu Ser Leu Leu Arg 85 8788PRTAcidovorax avenae 87Ala
Leu Lys Ile Ile Asp Ala Ala Leu Ser Ala Val Asn Gly Gln Arg 1 5 10
15 Ala Ser Phe Gly Ala Leu Gln Ser Arg Phe Glu Thr Thr Val Asn Asn
20 25 30 Leu Gln Ser Thr Ser Glu Asn Met Ser Ala Ser Arg Ser Arg
Ile Gln 35 40 45 Asp Ala Asp Phe Ala Ala Glu Thr Ala Asn Leu Ser
Arg Ser Gln Ile 50 55 60 Leu Gln Gln Ala Gly Thr Ala Met Val Ala
Gln Ala Asn Gln Leu Pro 65 70 75 80 Gln Gly Val Leu Ser Leu Leu Lys
85 8888PRTYersinia pestis 88Pro Leu Glu Thr Leu Asp Asp Ala Ile Lys
Gln Val Asp Gly Leu Arg 1 5 10 15 Ser Ser Leu Gly Ala Val Gln Asn
Arg Phe Glu Ser Ala Val Thr Asn 20 25 30 Leu Asn Asn Thr Val Thr
Asn Leu Thr Ser Ala Arg Ser Arg Ile Glu 35 40 45 Asp Ala Asp Tyr
Ala Thr Glu Val Ser Asn Met Ser Arg Ala Gln Ile 50 55 60 Leu Gln
Gln Ala Gly Thr Ser Val Leu Ser Gln Ala Asn Gln Val Pro 65 70 75 80
Gln Thr Val Leu Ser Leu Leu Asn 85 8988PRTPhotorhabdus luminescens
89Pro Leu Glu Thr Leu Asp Ser Ala Leu Ala Gln Val Asp Ser Leu Arg 1
5 10 15 Ser Ser Leu Gly Ala Ile Gln Asn Arg Leu Glu Ser Thr Val Asn
Asn 20 25 30 Leu Asn Asn Thr Val Asn Asn Leu Ser Ala Ala Arg Ser
Arg Ile Glu 35 40 45 Asp Ala Asp Tyr Ala Thr Glu Val Ser Asn Met
Ser Arg Gly Gln Ile 50 55 60 Leu Gln Gln Ala Gly Thr Ala Val Leu
Ala Gln Ala Asn Gln Val Pro 65 70 75 80 Gln Asn Val Met Ser Leu Leu
Arg 85 9089PRTRhodobacter sphaeroides 90Ala Ile Gly Val Ile Asp Val
Ala Leu Ser Lys Ile Ser Gln Ser Arg 1 5 10 15 Ser Glu Leu Gly Ala
Val Ser Asn Arg Leu Asp Ser Thr Ile Ser Asn 20 25 30 Leu Thr Asn
Ile Ser Thr Ser Val Gln Ala Ala Lys Ser Gln Val Met 35 40 45 Asp
Ala Asp Phe Ala Ala Glu Ser Thr Asn Leu Ala Arg Ser Gln Ile 50 55
60 Leu Ser Gln Ala Ser Thr Ala Met Leu Ala Gln Ala Asn Ser Ser Lys
65 70 75 80 Gln Asn Val Leu Ser Leu Leu Arg Gly 85
9188PRTXenorhabdus nematophila 91Pro Leu Asp Thr Leu Asp Lys Ala
Leu Ala Gln Val Asp Asp Met Arg 1 5 10 15 Ser Ser Leu Gly Ala Val
Gln Asn Arg Leu Glu Ser Thr Val Asn Asn 20 25 30 Leu Asn Asn Thr
Val Asn Asn Leu Ser Ala Ala Arg Ser Arg Ile Glu 35 40 45 Asp Ala
Asp Tyr Ala Val Glu Val Ser Asn Met Ser Arg Gly Gln Ile 50 55 60
Leu Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val Pro 65
70 75 80 Gln Thr Val Leu Ser Leu Leu Arg 85 9288PRTProteus
mirabilis 92Ala Leu Ala Thr Leu Asp Asn Ala Ile Ser Lys Val Asp Glu
Ser Arg 1 5 10 15 Ser Lys Leu Gly Ala Ile Gln Asn Arg Phe Gln Ser
Thr Ile Asn Asn 20 25 30 Leu Asn Asn Thr Val Asn Asn Leu Ser Ala
Ser Arg Ser Arg Ile Leu 35 40 45 Asp Ala Asp Tyr Ala Thr Glu Val
Ser Asn Met Ser Lys Asn Gln Ile 50 55 60 Leu Gln Gln Ala Gly Thr
Ala Val Leu Ala Gln Ala Asn Gln Val Pro 65 70 75 80 Gln Thr Val Leu
Ser Leu Leu Arg 85 9388PRTButyrivibrio fibrisolvens 93Ala Ile Asp
Ala Ile Ser Asp Ala Leu Ala Lys Val Ser Ala Gln Arg 1 5 10 15 Ser
Ala Leu Gly Ser Ile Gln Asn Arg Leu Glu His Ser Ile Ala Asn 20 25
30 Leu Asp Asn Val Val Glu Asn Thr Asn Ala Ala Glu Ser Arg Ile Arg
35 40 45 Asp Thr Asp Met Ala Asp Glu Met Val Thr Tyr Ser Lys Asn
Asn Ile 50 55 60 Leu Met Gln Ala Gly Gln Ser Met Leu Ala Gln Ala
Asn Gln Ala Thr 65 70 75 80 Gln Gly Val Leu Ser Ile Leu Gln 85
9488PRTBordetella pertussis 94Ala Leu Ser Lys Leu Asp Asp Ala Met
Lys Ala Val Asp Glu Gln Arg 1 5 10 15 Ser Ser Leu Gly Ala Ile Gln
Asn Arg Phe Glu Ser Thr Val Ala Asn 20 25 30 Leu Asn Asn Thr Ile
Thr Asn Leu Ser Ala Ala Arg Ser Arg Ile Glu 35 40 45 Asp Ser Asp
Tyr Ala Thr Glu Val Ser Asn Met Thr Lys Asn Gln Ile 50 55 60 Leu
Gln Gln Ala Gly Thr Ser Val Leu Ala Gln Ala Asn Gln Val Pro 65 70
75 80 Gln Asn Val Leu Ser Leu Leu Arg 85 9588PRTClostridium
chauvoei 95Ser Ile Lys Thr Ile Asn Ser Ala Ile Glu Gln Val Ser Thr
Gln Arg 1 5 10 15 Ser Lys Leu Gly Ala Val Gln Asn Arg Leu Glu His
Thr Ile Asn Asn 20 25 30 Leu Asn Thr Ser Ser Glu Asn Leu Thr Ala
Ala Glu Ser Arg Val Arg 35 40 45 Asp Val Asp Met Ala Lys Glu Met
Met Ala Phe Ser Lys Asn Asn Ile 50 55 60 Leu Ser Gln Ala Ala Gln
Ala Met Leu Gly Gln Ala Asn Gln Gln Pro 65 70 75 80 Gln Gly Val Leu
Gln Leu Leu Arg 85 9688PRTXanthomonas campestris 96Ala Leu Glu Ile
Val Asp Lys Ala Leu Thr Ser Val Asn Ser Ser Arg 1 5 10 15 Ala Asp
Met Gly Ala Val Gln Asn Arg Phe Thr Ser Thr Ile Ala Asn 20 25 30
Leu Ala Ala Thr Ser Glu Asn Leu Thr Ala Ser Arg Ser Arg Ile Ala 35
40 45 Asp Thr Asp Tyr Ala Lys Thr Thr Ala Glu Leu Thr Arg Thr Gln
Ile 50 55 60 Leu Gln Gln Ala Gly Thr Ala Met Leu Ala Gln Ala Lys
Ser Val Pro 65 70 75 80 Gln Asn Val Leu Ser Leu Leu Gln 85
9784PRTNitrosomonas europaea 97Ile Asp Asp Ala Leu Lys Ile Val Asn
Ser Thr Arg Ala Asp Leu Gly 1 5 10 15 Ala Ile Gln Asn Arg Phe Ser
Ser Ala Ile Ala Asn Leu Gln Thr Ser 20 25 30 Ala Glu Asn Leu Ser
Ala Ser Arg Ser Arg Ile Gln Asp Ala Asp Phe 35 40 45 Ala Ala Glu
Thr Ala Ala Leu Thr Arg Ala Gln Ile Leu Gln Gln Ala 50 55 60 Gly
Val Ala Met Leu Ser Gln Ala Asn Ala Leu Pro Asn Asn Val Leu 65 70
75 80 Ser Leu Leu Arg 9888PRTCampylobacter lari 98Val Met Asp Ile
Ala Asp Thr Ala Ile Ala Asn Leu Asp Thr Ile Arg 1 5 10 15 Ala Asn
Ile Gly Ala Thr Gln Asn Gln Ile Thr Ser Thr Ile Asn Asn 20 25 30
Ile Ser Val Thr Gln Val Asn Val Lys Ala Ala Glu Ser Gln Ile Arg 35
40 45 Asp Val Asp Phe Ala Ser Glu Ser Ala Asn Tyr Ser Lys Ala Asn
Ile 50 55 60 Leu Ala Gln Ser Gly Ser Tyr Ala Met Ala Gln Ala Asn
Ala Ala Ser 65 70 75 80 Gln Asn Val Leu Arg Leu Leu Gln 85
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