U.S. patent application number 12/629651 was filed with the patent office on 2010-04-08 for immune reactivity to her-2/neu protein for diagnosis and treatment of malignancies in which the her-2/neu oncogene is associated.
This patent application is currently assigned to University of Washington. Invention is credited to Martin A. Cheever, Mary L. Disis.
Application Number | 20100087621 12/629651 |
Document ID | / |
Family ID | 23641368 |
Filed Date | 2010-04-08 |
United States Patent
Application |
20100087621 |
Kind Code |
A1 |
Cheever; Martin A. ; et
al. |
April 8, 2010 |
IMMUNE REACTIVITY TO HER-2/NEU PROTEIN FOR DIAGNOSIS AND TREATMENT
OF MALIGNANCIES IN WHICH THE HER-2/NEU ONCOGENE IS ASSOCIATED
Abstract
Methods for the detection, monitoring and treatment of
malignancies in which the HER-2/neu oncogene is associated are
disclosed. Detection of specific T cell activation (e.g., by
measuring the proliferation of T cells) in response to in vitro
exposure to the HER-2/neu protein, or detection of immunocomplexes
formed between the HER-2/neu protein and antibodies in body fluid,
allows the diagnosis of the presence of a malignancy in which the
HER-2/neu oncogene is associated. The present invention also
discloses methods and compositions, including peptides, for
treating such malignancies.
Inventors: |
Cheever; Martin A.; (Mercer
Island, WA) ; Disis; Mary L.; (Renton, WA) |
Correspondence
Address: |
SEED INTELLECTUAL PROPERTY LAW GROUP PLLC
701 FIFTH AVE, SUITE 5400
SEATTLE
WA
98104
US
|
Assignee: |
University of Washington
Seattle
WA
|
Family ID: |
23641368 |
Appl. No.: |
12/629651 |
Filed: |
December 2, 2009 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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11821574 |
Jun 21, 2007 |
7655239 |
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12629651 |
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10647005 |
Aug 21, 2003 |
7247703 |
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11821574 |
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09354533 |
Jul 15, 1999 |
6664370 |
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10647005 |
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|
08466680 |
Jun 6, 1995 |
6075122 |
|
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09354533 |
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08414417 |
Mar 31, 1995 |
5801005 |
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08466680 |
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08106112 |
Aug 12, 1993 |
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08414417 |
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08033644 |
Mar 17, 1993 |
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08106112 |
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Current U.S.
Class: |
530/328 |
Current CPC
Class: |
G01N 33/57488 20130101;
Y10S 530/828 20130101; A61P 43/00 20180101; C07K 14/71 20130101;
G01N 33/57407 20130101; A61K 39/0011 20130101; C07K 14/4705
20130101; A61K 39/00 20130101; A61P 35/00 20180101; G01N 2333/82
20130101; C07K 7/06 20130101; G01N 2333/71 20130101; Y10S 530/806
20130101; A61K 38/00 20130101; A61K 39/001106 20180801; A61P 37/00
20180101 |
Class at
Publication: |
530/328 |
International
Class: |
C07K 7/06 20060101
C07K007/06 |
Goverment Interests
STATEMENT OF GOVERNMENT INTEREST
[0002] This invention was made with U.S. government support under
grant number R01 CA49850 awarded by the National Institutes of
Health. The U.S. Government has certain rights in the invention.
Claims
1. An isolated peptide consisting of one of the amino acid
sequences: TABLE-US-00008 (Seq. ID No. 26)
Gln-Leu-Phe-Glu-Asp-Asn-Tyr-Ala-Leu; (Seq. ID No. 27)
Lys-Ile-Phe-Gly-Ser-Leu-Ala-Phe-Leu; (Seq. ID No. 29)
Val-Met-Ala-Gly-Val-Gly-Ser-Pro-Tyr-Val;
2. An isolated peptide according to claim 1 consisting of the amino
acid sequence of Gln-Leu-Phe-Glu-Asp-Asn-Tyr-Ala-Leu (Seq. ID No.
26).
3. An isolated peptide according to claim 1 consisting of the amino
acid sequence of Lys-Ile-Phe-Gly-Ser-Leu-Ala-Phe-Leu (Seq. ID No.
27).
4. An isolated peptide according to claim 1 consisting of the amino
acid sequence of Val-Met-Ala-Gly-Val-Gly-Ser-Pro-Tyr-Val (Seq. ID
No. 29).
Description
CROSS REFERENCE TO RELATED APPLICATIONS
[0001] This application is a continuation of U.S. patent
application Ser. No. 11/821,574 filed Jun. 19, 2007, now allowed;
which application is a continuation of U.S. patent application Ser.
No. 10/647,005, filed Aug. 21, 2003 and issued as U.S. Pat. No.
7,247,703; which application is a continuation of U.S. patent
application Ser. No. 09/354,533 filed Jul. 15, 1999 and issued as
U.S. Pat. No. 6,664,370; which application is a continuation of
U.S. patent application Ser. No. 08/466,680 filed Jun. 6, 1995 and
issued as U.S. Pat. No. 6,075,122; which application is a
continuation of U.S. patent application Ser. No. 08/414,417 filed
Mar. 31, 1995 and issued as U.S. Pat. No. 5,801,005; which
application is a continuation-in-part of U.S. patent application
Ser. No. 08/106,112 filed Aug. 12, 1993 and abandoned; which
application is a continuation-in-part of U.S. patent application
Ser. No. 08/033,644 filed Mar. 17, 1993 and abandoned; which
applications are incorporated by reference herein in their
entirety.
SEQUENCE LISTING
[0003] The Sequence Listing associated with this application is
provided in text format in lieu of a paper copy, and is hereby
incorporated by reference into the specification. The name of the
text file containing the Sequence Listing is 920010.sub.--448C13
SEQUENCE_LISTING.txt. The text file is 39 KB, was created on Dec.
2, 2009 and is being submitted electronically via EFS-Web.
BACKGROUND OF THE INVENTION
[0004] 1. Field of the Invention
[0005] The present invention is generally directed toward the
detection, monitoring, and treatment of malignancies, in which the
HER-2/neu oncogene is associated, through the use of a cancer
patient's own immune reactivity to the HER-2/neu protein expressed
by the HER-2/neu gene.
[0006] 2. Description of the Related Art
[0007] Despite enormous investments of financial and human
resources, cancer remains one of the major causes of death. For
example, cancer is the leading cause of death in women between the
ages of 35 and 74. Breast cancer is the most common malignancy in
women and the incidence for developing breast cancer is on the
rise. One in nine women will be diagnosed with the disease.
Standard approaches to cure breast cancer have centered around a
combination of surgery, radiation and chemotherapy. These
approaches have resulted in some dramatic successes in certain
malignancies. However, breast cancer is most often incurable, when
diagnosed beyond a certain stage. Alternative approaches to early
diagnosis and therapy are necessary.
[0008] A common characteristic of malignancies is uncontrolled cell
growth. Cancer cells appear to have undergone a process of
transformation from the normal phenotype to a malignant phenotype
capable of autonomous growth. Amplification and overexpression of
somatic cell genes is considered to be a common primary event that
results in the transformation of normal cells to malignant cells.
The malignant phenotypic characteristics encoded by the oncogenic
genes are passed on during cell division to the progeny of the
transformed cells.
[0009] Ongoing research involving oncogenes has identified at least
forty oncogenes operative in malignant cells and responsible for,
or associated with, transformation. Oncogenes have been classified
into different groups based on the putative function or location of
their gene products (such as the protein expressed by the
oncogene).
[0010] Oncogenes are believed to be essential for certain aspects
of normal cellular physiology. In this regard, the HER-2/neu
oncogene is a member of the tyrosine protein kinase family of
oncogenes and shares a high degree of homology with the epidermal
growth factor receptor. HER-2/neu presumably plays a role in cell
growth and/or differentiation. HER-2/neu appears to induce
malignancies through quantitative mechanisms that result from
increased or deregulated expression of an essentially normal gene
product.
[0011] HER-2/neu (p185) is the protein product of the HER-2/neu
oncogene. The HER-2/neu gene is amplified and the HER-2/neu protein
is overexpressed in a variety of cancers including breast, ovarian,
colon, lung and prostate cancer. HER-2/neu is related to malignant
transformation. It is found in 50%-60% of ductal in situ carcinoma
and 20%-40% of all breast cancers, as well as a substantial
fraction of adenocarcinomas arising in the ovaries, prostate, colon
and lung. HER-2/neu is intimately associated not only with the
malignant phenotype, but also with the aggressiveness of the
malignancy, being found in one-fourth of all invasive breast
cancers. HER-2/neu overexpression is correlated with a poor
prognosis in both breast and ovarian cancer. HER-2/neu is a
transmembrane protein with a relative molecular mass of 185 kd that
is approximately 1255 amino acids (aa) in length. It has an
extracellular binding domain (ECD) of approximately 645 aa, with
40% homology to epidermal growth factor receptor (EGFR), a highly
hydrophobic transmembrane anchor domain (TMD), and a
carboxyterminal cytoplasmic domain (CD) of approximately 580 aa
with 80% homology to EGFR.
[0012] An approach to developing a diagnostic assay for
malignancies, in which the HER-2/neu oncogene is associated, has
been to attempt to quantify the protein expression product of the
HER-2/neu oncogene in tissue or body fluids. However, there have
been problems in the development of diagnostic assays based on
direct detection of HER-2/neu protein.
[0013] Due to the difficulties in the current approaches to
diagnosis and therapy of cancers in which the HER-2/neu oncogene is
associated, there is a need in the art for improved methods and
compositions. The present invention fills this need, and further
provides other related advantages.
SUMMARY OF THE INVENTION
[0014] Briefly stated, the present invention provides a variety of
methods for the detection of a malignancy in a warm-blooded animal,
wherein a HER-2/neu oncogene is associated with the malignancy. The
methods may be used on a one time basis when a malignancy is
suspected or on a periodic basis, e.g., to monitor an individual
with an elevated risk of acquiring or reacquiring a malignancy. In
one embodiment, the method comprises the steps of: (a) isolating
CD4.sup.+ T cells from a warm-blooded animal; (b) incubating the T
cells with HER-2/neu protein; and (c) detecting the presence or
absence of specific activation of the T cells, thereby determining
the presence or absence of the malignancy. In another embodiment,
the method comprises the steps of: (a) isolating CD8.sup.+ T cells
from a warm-blooded animal; (b) incubating the T cells with
HER-2/neu protein; and (c) detecting the presence or absence of
specific activation of the T cells, thereby determining the
presence or absence of the malignancy. In another embodiment, the
method comprises the steps of: (a) contacting a body fluid,
suspected of containing antibodies specific for HER-2/neu protein,
with HER-2/neu protein; (b) incubating the body fluid under
conditions and for a time sufficient to allow immunocomplexes to
form; and (c) detecting the presence or absence of immunocomplexes
formed between the HER-2/neu protein and antibodies in the body
fluid specific for the HER-2/neu protein, thereby determining the
presence or absence of the malignancy.
[0015] In another aspect, the present invention provides methods
for monitoring the effectiveness of cancer therapy in a
warm-blooded animal with a malignancy, wherein a HER-2/neu oncogene
is associated with the malignancy. Uses of such methods include the
early detection of relapse. In one embodiment, the method comprises
the steps of: (a) contacting a first body fluid sample, taken from
the warm-blooded animal prior to initiation of therapy, with
HER-2/neu protein; (b) incubating the body fluid under conditions
and for a time sufficient to allow immunocomplexes to form; (c)
detecting immunocomplexes formed between the HER-2/neu protein and
antibodies in the body fluid specific for the HER-2/neu protein;
(d) repeating steps (a), (b), and (c) on a second body fluid sample
taken from the animal subsequent to the initiation of therapy; and
(e) comparing the number of immunocomplexes detected in the first
and second body fluid samples, thereby monitoring the effectiveness
of the therapy in the animal.
[0016] The present invention is also directed toward methods for
treating a malignancy in a warm-blooded animal, wherein a HER-2/neu
oncogene is associated with the malignancy. In one embodiment, the
method comprises the steps of: (a) isolating CD4.sup.+ T cells from
a warm-blooded animal; (b) incubating the T cells in the presence
of HER-2/neu protein, such that the T cells proliferate; and (c)
administering to the warm-blooded animal an effective amount of the
proliferated T cells. In another embodiment, the method comprises
the steps of: (a) isolating CD8.sup.+ T cells from a warm-blooded
animal; (b) incubating the T cells in the presence of HER-2/neu
protein, such that the T cells proliferate; and (c) administering
to the warm-blooded animal an effective amount of the proliferated
T cells. In another embodiment, the method comprises the steps of:
(a) isolating CD4.sup.+ T cells from a warm-blooded animal; (b)
incubating the T cells in the presence of HER-2/neu protein, such
that the T cells proliferate; (c) cloning one or more cells that
proliferated in the presence of HER-2/neu protein; and (d)
administering to the warm-blooded animal an effective amount of the
cloned T cells. In another embodiment, the method comprises the
steps of: (a) isolating CD8.sup.+ T cells from a warm-blooded
animal; (b) incubating the T cells in the presence of HER-2/neu
protein, such that the T cells proliferate; (c) cloning one or more
cells that proliferated in the presence of HER-2/neu protein; and
(d) administering to the warm-blooded animal an effective amount of
the cloned T cells. In yet another embodiment, the method comprises
immunizing the animal with a HER-2/neu peptide recognized by T
cells, the peptide not being the extracellular domain of the
protein expression product of a HER-2/neu oncogene.
[0017] Within a related aspect, the present invention provides
anti-cancer therapeutic compositions comprising T cells
proliferated in the presence of HER-2/neu protein, in combination
with a pharmaceutically acceptable carrier or diluent. In addition,
a variety of peptides designated for CD8.sup.+ T cell responses are
provided which include peptides consisting essentially of:
TABLE-US-00001 (Seq. ID No. 1) His-Leu-Tyr-Gln-Gly-Cys-Gln-Val-Val;
(Seq. ID No. 2) Pro-Leu-Gln-Pro-Glu-Gln-Leu-Gln-Val; (Seq. ID No.
3) Pro-Leu-Thr-Ser-Ile-Ile-Ser-Ala-Val; (Seq. ID No. 4)
Ile-Leu-Leu-Val-Val-Val-Leu-Gly-Val; (Seq. ID No. 5)
Leu-Leu-Val-Val-Val-Leu-Gly-Val-Val; (Seq. ID No. 6)
Arg-Leu-Leu-Gln-Glu-Thr-Glu-Leu-Val; (Seq. ID No. 7)
Cys-Leu-Thr-Ser-Thr-Val-Gln-Leu-Val; (Seq. ID No. 8)
Asp-Leu-Ala-Ala-Arg-Asn-Val-Leu-Val; (Seq. ID No. 9)
Val-Leu-Val-Lys-Ser-Pro-Asn-His-Val; (Seq. ID No. 10)
Thr-Leu-Ser-Pro-Gly-Lys-Asn-Gly-Val; (Seq. ID No. 11)
Val-Leu-Gly-Val-Val-Phe-Gly-Ile-Leu; (Seq. ID No. 12)
Leu-Ile-Lys-Arg-Arg-Gln-Gln-Lys-Ile; (Seq. ID No. 13)
Lys-Ile-Pro-Val-Ala-Ile-Lys-Val-Leu; (Seq. ID No. 14)
Ile-Leu-Asp-Glu-Ala-Tyr-Val-Met-Ala; (Seq. ID No. 15)
Gln-Leu-Met-Pro-Tyr-Gly-Cys-Leu-Leu; (Seq. ID No. 16)
Gln-Ile-Ala-Lys-Gly-Met-Ser-Tyr-Leu; (Seq. ID No. 17)
Leu-Leu-Asn-Trp-Cys-Met-Gln-Ile-Ala; (Seq. ID No. 18)
Arg-Leu-Val-His-Arg-Asp-Leu-Ala-Ala; (Seq. ID No. 19)
Asp-Ile-Asp-Glu-Thr-Glu-Tyr-His-Ala; (Seq. ID No. 20)
Asp-Leu-Leu-Glu-Lys-Gly-Glu-Arg-Leu; (Seq. ID No. 21)
Thr-Ile-Asp-Val-Tyr-Met-Leu-Met-Val; (Seq. ID No. 22)
Met-Ile-Met-Val-Lys-Cys-Trp-Met-Ile; (Seq. ID No. 23)
Asp-Leu-Val-Asp-Ala-Glu-Glu-Tyr-Leu; (Seq. ID No. 24)
Gly-Leu-Glu-Pro-Ser-Glu-Glu-Glu-Ala; (Seq. ID No. 25)
Tyr-Leu-Thr-Pro-Gln-Gly-Gly-Ala-Ala; (Seq. ID No. 26)
Gln-Leu-Phe-Glu-Asp-Asn-Tyr-Ala-Leu; (Seq. ID No. 27)
Lys-Ile-Phe-Gly-Ser-Leu-Ala-Phe-Leu; (Seq. ID No. 28)
Ile-Leu-Asp-Glu-Ala-Tyr-Val-Met-Ala-Gly-Val; or (Seq. ID No. 29)
Val-Met-Ala-Gly-Val-Gly-Ser-Pro-Tyr-Val.
[0018] Similarly, a variety of peptides designated for CD4+ T cell
responses are provided which include peptides consisting
essentially of:
TABLE-US-00002 (Seq. ID No. 31)
His-Leu-Asp-Met-Leu-Arg-His-Leu-Tyr-Gln-Gly-Cys- Gln-Val-Val; (Seq.
ID No. 31) Pro-Leu-Gln-Arg-Leu-Arg-Ile-Val-Arg-Gly-Thr-Gln-
Leu-Phe-Glu; (Seq. ID No. 32)
Leu-Arg-Ser-Leu-Thr-Glu-Ile-Leu-Lys-Gly-Gly-Val- Leu-Ile-Gln; (Seq.
ID No. 33) Val-Thr-Tyr-Asn-Thr-Asp-Thr-Phe-Glu-Ser-Met-Pro-
Asn-Pro-Glu; (Seq. ID No. 34)
His-Leu-Arg-Glu-Val-Arg-Ala-Val-Thr-Ser-Ala-Asn- Ile-Gln-Glu; (Seq.
ID No. 35) Val-Arg-Ala-Val-Thr-Ser-Ala-Asn-Ile-Gln-Glu-Phe-
Ala-Gly-Cys; (Seq. ID No. 36)
Asn-Ile-Gln-Glu-Phe-Ala-Gly-Cys-Lys-Lys-Ile-Phe- Gly-Ser-Leu; (Seq.
ID No. 37) Gln-Val-Phe-Glu-Thr-Leu-Glu-Glu-Ile-Thr-Gly-Tyr-
Leu-Tyr-Ile; (Seq. ID No. 38)
Gln-Glu-Cys-Val-Glu-Glu-Cys-Arg-Val-Leu-Gln-Gly- Leu-Pro-Arg; (Seq.
ID No. 39) Val-Val-Val-Leu-Gly-Val-Val-Phe-Gly-Ile-Leu-Ile-
Lys-Arg-Arg; (Seq. ID No. 40)
Lys-Tyr-Thr-Met-Arg-Arg-Leu-Leu-Gln-Glu-Thr-Glu- Leu-Val-Glu; (Seq.
ID No. 41) Gly-Ala-Met-Pro-Asn-Gln-Ala-Gln-Met-Arg-Ile-Leu-
Lys-Glu-Thr; (Seq. ID No. 42)
Val-Lys-Val-Leu-Gly-Ser-Gly-Ala-Phe-Gly-Thr-Val- Tyr-Lys-Gly; (Seq.
ID No. 43) Ser-Pro-Lys-Ala-Asn-Lys-Glu-Ile-Leu-Asp-Glu-Ala-
Tyr-Val-Met; (Seq. ID No. 44)
Gly-Val-Gly-Ser-Pro-Tyr-Val-Ser-Arg-Leu-Leu-Gly- Ile-Cys-Leu; (Seq.
ID No. 45) Ser-Arg-Leu-Leu-Gly-Ile-Cys-Leu-Thr-Ser-Thr-Val-
Gln-Leu-Val; (Seq. ID No. 46)
Gly-Ser-Gln-Asp-Leu-Leu-Asn-Trp-Cys-Met-Gln-Ile- Ala-Lys-Gly; (Seq.
ID No. 47) Val-Lys-Ile-Thr-Asp-Phe-Gly-Leu-Ala-Arg-Leu-Leu-
Asp-Ile-Asp; (Seq. ID No. 48)
Thr-Val-Trp-Glu-Leu-Met-Thr-Phe-Gly-Ala-Lys-Pro- Tyr-Asp-Gly; (Seq.
ID No. 49) Pro-Ala-Arg-Glu-Ile-Pro-Asp-Leu-Leu-Glu-Lys-Gly-
Glu-Arg-Leu; (Seq. ID No. 50)
Arg-Phe-Arg-Glu-Leu-Val-Ser-Glu-Phe-Ser-Arg-Met- Ala-Arg-Asp; (Seq.
ID No. 51) Glu-Asp-Asp-Asp-Met-Gly-Asp-Leu-Val-Asp-Ala-Glu-
Glu-Tyr-Leu; (Seq. ID No. 52)
Gly-Met-Gly-Ala-Ala-Lys-Gly-Leu-Gln-Ser-Leu-Pro- Thr-His-Asp; (Seq.
ID No. 53) Thr-Cys-Ser-Pro-Gln-Pro-Glu-Tyr-Val-Asn-Gln-Pro-
Asp-Val-Arg; (Seq. ID No. 54)
Thr-Leu-Glu-Arg-Pro-Lys-Thr-Leu-Ser-Pro-Gly-Lys- Asn-Gly-Val; (Seq.
ID No. 55) Gly-Gly-Ala-Val-Glu-Asn-Pro-Glu-Tyr-Leu-Thr-Pro-
Gln-Gly-Gly; (Seq. ID No. 56)
Asn-Gln-Glu-Val-Thr-Ala-Glu-Asp-Gly-Thr-Gln-Arg- Cys-Glu-Lys; (Seq.
ID No. 57) Gln-Val-Ile-Arg-Gly-Arg-Ile-Leu-His-Asn-Gly-Ala-
Tyr-Ser-Leu; (Seq. ID No. 58)
Leu-Gln-Val-Phe-Glu-Thr-Leu-Glu-Glu-Ile-Thr-Gly- Tyr-Leu-Tyr; (Seq.
ID No. 59) Ala-Ser-Pro-Leu-Thr-Ser-Ile-Ile-Ser-Ala-Val-Val-
Gly-Ile-Leu; (Seq. ID No. 60)
Thr-Gln-Arg-Cys-Glu-Lys-Cys-Ser-Lys-Pro-Cys-Ala-
Arg-Val-Cys-Tyr-Gly-Leu; (Seq. ID No. 61)
Arg-Leu-Arg-Ile-Val-Arg-Gly-Thr-Gln-Leu-Phe-Glu-
Asp-Asn-Tyr-Ala-Leu; (Seq. ID No. 62)
Lys-Ile-Phe-Gly-Ser-Leu-Ala-Phe-Leu-Pro-Glu-Ser- Phe-Asp-Gly-Asp;
(Seq. ID No. 63) Arg-Arg-Leu-Leu-Gln-Glu-Thr-Glu-Leu-Val-Glu-Pro-
Leu-Thr-Pro-Ser; or (Seq. ID No. 64)
Glu-Leu-Val-Ser-Glu-Phe-Ser-Arg-Met-Ala-Arg-Asp- Pro-Gln.
[0019] Additional peptides are provided and include a peptide
consisting essentially of the amino acid sequence of FIG. 1 from
lysine, amino acid 676, to valine, amino acid 1255 (Seq. ID No.
69).
[0020] These and other aspects of the present invention will become
evident upon reference to the following detailed description and
attached drawings.
BRIEF DESCRIPTION OF THE DRAWINGS
[0021] FIG. 1 shows that p185.sup.HER-2/neu protein (SEQ ID NO: 68)
contains multiple segments with amino acid sequences appropriate
for binding to class II MHC molecules. Each outlined amino acid
represents the center point of an 11-mer peptide with alpha-helical
periodicity and amphipathicity. Each underlined amino acid segment
represents an epitope corresponding to Rothbard and Taylor
motifs.
[0022] FIG. 2 graphically illustrates the results of a low
frequency event screening from a normal individual indicating that
a CD4.sup.+ T cell response can be detected against
p185.sup.HER-2/neu and peptides derived from its amino acid
sequence. The graph represents the data from one normal individual
analyzed with the low frequency screening assayed described further
below. Positive responses to the intact protein and two peptides
were detected.
[0023] FIG. 3 (panels A-D) graphically illustrates that CD4.sup.+ T
cells reactive to p185.sup.HER-2/neu protein and peptides can be
detected in high frequency from patients with HER-2/neu positive
breast cancer and can also be detected in some patients with tumors
that test negatively for expression of p185.sup.HER-2/neu protein.
All four breast cancer patients represented here, patient A (panel
A), patient B (panel B), patient C (panel C), and patient D (panel
D), were premenopausal women. Patient A had a primary tumor that
tested negatively for overexpression of p185.sup.HER-2/neu. The
other three patients had HER-2/neu positive tumors. A proliferation
assay was performed using purified peripheral blood mononuclear
cells (PBMC) as described below, with each experimental group done
in 24 well replicate. Two.times.10.sup.5 PBMC/well were incubated
with no antigen, tetanus toxoid (5 .mu.g/ml), p185.sup.HER-2/neu
(50 .mu.g/ml), or HER-2/neu derived peptides (50 .mu.g/ml) as
described further below. After 4 days, wells were pulsed with 1
.mu.Ci of tritiated thymidine (.sup.3H-TdR) for 6-8 hours and then
counted. The data represents the mean of 24 determinations of the
c.p.m. with standard error bars expressed.
[0024] FIG. 4 (panels A and B) graphically illustrates that
CD8.sup.+ CTL specific for HER-2/neu peptides 48-56 and 789-797 can
be generated by in vitro immunization. Three.times.10.sup.7 PBMC
from a homozygous HLA-A2 normal donor were incubated with p48-56 or
p789-797.sup.HER-2/neu peptides at concentrations of 10 .mu.g/ml.
The lymphocytes were tested for lytic activity after 10 in vitro
sensitizations (IVS). Data is depicted after the tenth IVS with
p48-56 (panel A) or with p789-797 (panel B). Target cells consisted
of .sup.51Cr-labeled autologous EBV transformed B lymphocytes which
had been incubated with p48-56 or p789-797.sup.HER-2/neu or an
irrelevant peptide for 2 hours prior to use. A four hour chromium
release assay (CRA) was performed. The results represent the
percent specific lysis at the indicated effector:target (E:T)
ratio. Target controls of .sup.51Cr-labeled K562 and Daudi cells
were also included to evaluate NK and LAK activity. The execution
of the CRA is as described. The results represent the percent
specific lysis at the indicated effector:target (E:T) ratio.
[0025] FIG. 5 pictorially illustrates that antibodies are
detectable against p185.sup.HER-2/neu in the sera of a breast
cancer patient. Lane 1 represents the immunoblot of p185 using a
HER-2/neu positive breast cancer patient's sera (1:1000 dilution)
as primary antibody. The blot was analyzed as described further
below. Lane 2 represents the control strip from that experiment
developed with c-neu antibody.
[0026] FIG. 6 pictorially shows that antibodies in the sera of a
breast cancer patient identify the same p185 band as does a known
HER-2/neu-specific antibody ("control antibody"). A membrane
preparation from NIH3T3 cells (a murine cell line) that had been
transfected with HER-2/neu cDNA ("NIH3T3+H2N") was tested against
control antibody (lane A) or patient sera (lane D). Similarly, a
membrane preparation from untransfected cells ("NIH3T3") was tested
against control antibody (lane B) or patient sera (lane C).
[0027] FIG. 7 pictorially illustrates that some breast cancer
patients have antibodies directed to both the extracellular and
intracellular domain of the HER-2/neu protein. Sera of breast
cancer patients is tested against the extracellular domain ("ECD
protein") or the intracellular domain ("ICD protein"), in lanes A
and B, respectively.
[0028] FIG. 8 graphically illustrates that rats immunized with
peptides derived from the intracellular domain (ICD) portion of rat
neu protein develop antibody responses to neu protein. An ELISA was
performed to evaluate peptide immunized animals for antibody
responses to non-transforming rat neu protein. Each sera was
analyzed at a 1:25, 1:50, 1:100, and 1:200 dilution. The OD value
shown is that of the background wells subtracted from the wells
coated with neu protein. All data shown is at a rat sera
concentration of 1:25. Control sera was derived from an animal
immunized with adjuvant alone. Antibody responses titered with
decreasing serum concentrations. Results were reproducible in 3
separately run assays.
[0029] FIG. 9 graphically illustrates that rats immunized with
peptides derived from the extracellular domain (ECD) portion of rat
neu protein develop antibody responses to neu protein. ELISA
evaluation was performed as described in FIG. 8. All data shown is
at a rat sera concentration of 1:25. Control sera was derived from
an animal immunized with adjuvant alone. Antibody responses titered
with decreasing serum concentrations. Results were reproducible in
3 separately run assays.
[0030] FIG. 10 graphically shows that epitope analysis of ICD
antibody responses demonstrates dominant B cell epitopes as well as
"determinant spreading" between domains. ELISA analysis for peptide
epitopes was performed. Each animal's sera was evaluated at
dilutions of 1:25, 1:50, 1:100, and 1:200 for each peptide
analyzed. Antibody responses titered with decreasing serum
concentrations. All data shown is at a rat sera concentration of
1:50. Control sera analyzed was pooled sera from 5 non-immunized
animals. Results were reproducible in 3 separately run assays.
[0031] FIG. 11 graphically shows that epitope analysis of ECD
antibody responses demonstrates dominant B cell epitopes. ELISA
analysis for peptide epitopes was performed. Each animal's sera was
evaluated at dilutions of 1:25, 1:50, 1:100, and 1:200 for each
peptide analyzed. Antibody responses titered with decreasing serum
concentrations. All data shown is at a rat sera concentration of
1:50. Control sera analyzed was pooled sera from 5 non-immunized
animals. Results were reproducible in 3 separately run assays.
[0032] FIG. 12 pictorially illustrates that antibodies elicited by
immunization to either ICD or ECD peptides are specific for and can
immunoprecipitate both rat neu protein and human HER-2/neu protein.
Panel A shows the results of an immunoprecipitation experiment with
immunized rat sera and lysates of DHFRG-8. Each sera was able to
immunoprecipitate rat neu from the cell lysates. The
immunoprecipitates were resolved on a 7.5% SDS-acrylamide gel and
transferred to nitrocellulose. The blots were probed with primary
antibody, c-neu-Ab-3, at a 1:1000 dilution. Control sera of an
animal immunized with the adjuvant alone showed no evidence of
reactivity to rat neu. Panel B depicts the results of an
immunoprecipitation experiment with immunized rat sera and lysates
of SKBR3, a source of human neu. Immunoblotting was performed in an
identical manner and all experimental animal sera were able to
immunoprecipitate human neu. The control sera, again, showed no
evidence of reactivity.
[0033] FIG. 13 pictorially illustrates that B cell epitopes that
are cross reactive between human and rat neu are present in both
domains of the protein. Shown here are the results of Western blot
analysis of protein domain epitope mapping from representative
animals in each immunized group. Animal 1.2 was immunized with the
ECD group of peptides, animal 2.2 with the ICD group of peptides,
and the control animal was immunized with adjuvant alone. Proteins
were electrophoresed. After transfer to nitrocellulose the blots
were incubated for 18 hours in rat sera at a 1:500 dilution.
Antibody responses were detected with a second step goat anti-rat
Ig HRP antibody at a dilution of 1:5000. Responses were detected to
both human and rat neu as well as to both human ICD and ECD domain
recombinant proteins. Antibody responses to these proteins could
not be detected in the control animal which was immunized with
adjuvant alone. Although data are shown here for animals 1.2, 2.2,
and control, all animals in each group had the same pattern of
response.
[0034] FIG. 14 graphically illustrates that immunization of rats
with ICD peptides elicits neu peptide-specific T cell responses.
2.times.10.sup.5 immunized spleen cells were incubated with 25
.mu.g/ml of the various peptides. The "Mix" group consisted of 25
.mu.g/ml each of the immunizing peptides. A proliferation assay was
performed. Each experimental group was done in 6 well replicates.
The data is expressed in terms of a stimulation index (SI) which is
the mean of the experimental wells divided by the mean of the
control (no antigen) wells. Stimulation indices greater than 2 are
considered to be indicative of a primed response. Animals immunized
with adjuvant alone showed no stimulation index greater than 0.9 to
any of the tested peptides (data not shown).
[0035] FIG. 15 graphically illustrates that immunization of rats
with ICD peptides elicits neu protein-specific T cell responses.
1.times.10.sup.5 cultured T cells derived from immunized spleen
were incubated with 1.times.10.sup.5 syngeneic spleen as APC
(antigen presenting cells) and 1 .mu.g/ml of purified rat neu
protein. Each experimental group was done in 6 well replicates. The
data is expressed in terms of a stimulation index which is the mean
of the experimental wells divided by the mean of the control (no
antigen) wells. Stimulation indices greater than 2 are considered
to be indicative of a primed response. Wild type ras protein was
the irrelevant protein used in the assay.
[0036] FIG. 16 graphically shows that immunization of rats with ECD
peptides elicits only weak peptide-specific T cell responses.
2.times.10.sup.5 immunized spleen cells were incubated with 25
.mu.g/ml of the various peptides. The "Mix" group consisted of 25
.mu.g/ml each of the immunizing peptides. Each experimental group
was done in 6 well replicates. The data is expressed in terms of a
stimulation index which is the mean of the experimental wells
divided by the mean of the control (no antigen) wells. Stimulation
indices greater than 2 are considered to be indicative of a primed
response. Animals immunized with adjuvant alone showed no
stimulation index greater than 1.0 to any of the tested peptides
(data not shown).
[0037] FIG. 17 graphically shows that immunization of rats with ECD
peptides elicits weak, but positive, responses to neu protein.
1.times.10.sup.5 cultured T cells derived from immunized spleen or
lymph nodes were incubated with 1.times.10.sup.5 syngeneic spleen
as APC and 1 .mu.g/ml of purified rat neu protein. Each
experimental group was done in 6 well replicates. The data is
expressed in terms of a stimulation index which is the mean of the
experimental wells divided by the mean of the control (no antigen)
wells. Stimulation indices greater than 2 are considered to be
indicative of a primed response. Wild type ras protein was the
irrelevant protein used in the assay.
DETAILED DESCRIPTION OF THE INVENTION
[0038] Prior to setting forth the invention, it may be helpful to
an understanding thereof to set forth definitions of certain terms
to be used hereinafter.
[0039] HER-2/neu Protein--as used herein, refers to the p185
protein (also known as c-erbB2) and peptides thereof which are
recognized by helper T cells or cytotoxic T cells; and may be
naturally derived, synthetically produced, genetically engineered,
or a functional equivalent thereof, e.g., where one or more amino
acids are replaced by other amino acid(s) or non-amino acid(s)
which do not substantially affect function.
[0040] Proliferation of T cells--as used herein, includes the
multiplication of T cells as well as the stimulation of T cells
leading to multiplication, i.e., the initiation of events leading
to mitosis and mitosis itself. Methods for detecting proliferation
of T cells are discussed below.
[0041] As noted above, the present invention is directed toward
methods and compositions for the diagnosis, monitoring and
treatment of malignancies in a warm-blooded animal, wherein an
amplified HER-2/neu gene is associated with the malignancies.
Association of an amplified HER-2/neu gene with a malignancy does
not require that the protein expression product of the gene be
present on the tumor. For example, overexpression of the protein
expression product may be involved with initiation of a tumor, but
the protein expression may subsequently be lost. An effective
autochthonous immune response may convert a HER-2/neu positive
tumor to HER-2/neu negative, but existent immunity will be present
and allow diagnosis.
[0042] More specifically, the disclosure of the present invention,
in one aspect, shows that the protein expression product of the
HER-2/neu gene can be recognized by thymus-dependent lymphocytes
(hereinafter "T cells") and, therefore, the autochthonous immune T
cell response can be utilized to diagnose, monitor and treat
malignancies in which such a protein is or has been overexpressed.
The disclosure of the present invention also shows, in another
aspect, that sera of patients with a malignancy, in which an
amplified HER-2/neu oncogene is associated, contain antibodies to
HER-2/neu protein. The autochthonous antibody response can be used
to diagnose, monitor and treat malignancies in which such a protein
is overexpressed.
[0043] It is well known that the two major arms of the immune
system are: (1) cell-mediated immunity with immune T cells and (2)
humoral immunity with antibodies. Further, the immune system
normally functions to recognize and destroy any foreign or aberrant
cells in the body. Since the HER-2/neu protein is expressed by some
normal cells, tolerance and/or anergy (i.e., diminished reactivity
to a specific antigen) is expected. Thus, it is surprising that, as
disclosed within the present invention, both T cell and antibody
responses to HER-2/neu are detected.
[0044] In general, CD4.sup.+ T cell populations are considered to
function as helpers/inducers through the release of lymphokines
when stimulated by a specific antigen; however, a subset of
CD4.sup.+ cells can act as cytotoxic T lymphocytes (CTL).
Similarly, CD8.sup.+ T cells are considered to function by directly
lysing antigenic targets; however, under a variety of circumstances
they can secrete lymphokines to provide helper or DTH function.
Despite the potential of overlapping function, the phenotypic CD4
and CD8 markers are linked to the recognition of peptides bound to
class II or class I MHC antigens. The recognition of antigen in the
context of class II or class I MHC mandates that CD4.sup.+ and
CD8.sup.+ T cells respond to different antigens or the same antigen
presented under different circumstances. The binding of immunogenic
peptides to class II MHC antigens most commonly occurs for antigens
ingested by antigen presenting cells. Therefore, CD4.sup.+ T cells
generally recognize antigens that have been external to the tumor
cells. By contrast, under normal circumstances, binding of peptides
to class I MHC occurs only for proteins present in the cytosol and
synthesized by the target itself, proteins in the external
environment are excluded. An exception to this is the binding of
exogenous peptides with a precise class I binding motif which are
present outside the cell in high concentration. Thus, CD4.sup.+ and
CD8.sup.+ T cells have broadly different functions and tend to
recognize different antigens as a reflection of where the antigens
normally reside.
[0045] As disclosed within the present invention, the protein
product expressed by the HER-2/neu oncogene is recognized by T
cells. Such a protein expression product "turns over" within cells,
i.e., undergoes a cycle wherein a synthesized protein functions and
then eventually is degraded and replaced by a newly synthesized
molecule. During the protein life cycle, peptide fragments from the
protein bind to major histocompatibility complex (MHC) antigens. By
display of a peptide bound to MHC antigen on the cell surface and
recognition by host T cells of the combination of peptide plus self
MHC antigen, a malignant cell will be immunogenic to T cells. The
exquisite specificity of the T cell receptor enables individual T
cells to discriminate between protein fragments which differ by a
single amino acid residue.
[0046] During the immune response to a peptide, T cells expressing
a T cell receptor with high affinity binding of the peptide-MHC
complex will bind to the peptide-MHC complex and thereby become
activated and induced to proliferate. In the first encounter with a
peptide, small numbers of immune T cells will secrete lymphokines,
proliferate and differentiate into effector and memory T cells. The
primary immune response will occur in vivo but has been difficult
to detect in vitro. Subsequent encounter with the same antigen by
the memory T cell will lead to a faster and more intense immune
response. The secondary response will occur either in vivo or in
vitro. The in vitro response is easily gauged by measuring the
degree of proliferation, the degree of cytokine production, or the
generation of cytolytic activity of the T cell population
re-exposed in the antigen. Substantial proliferation of the T cell
population in response to a particular antigen is considered to be
indicative of prior exposure or priming to the antigen.
[0047] Within one aspect of the present invention, a malignancy in
which a HER-2/neu oncogene is associated may be detected.
Representative examples of such malignancies include breast,
ovarian, colon, lung and prostate cancers. An immune response to
the HER-2/neu protein, once generated, can be long-lived and can be
detected long after immunization, regardless of whether the protein
is present or absent in the body at the time of testing. In one
embodiment, prior exposure of a warm-blooded animal, such as
humans, to the HER-2/neu protein can be detected by examining for
the presence or absence of specific activation of CD4.sup.+ or
CD8.sup.+ T cells. More specifically, T cells isolated from an
individual by routine techniques (such as by Ficoll/Hypaque density
gradient centrifugation of peripheral blood lymphocytes) are
incubated with HER-2/neu protein. For example, T cells may be
incubated in vitro for 2-9 days (typically 4 days) at 37 C with
HER-2/neu protein (typically, 5 .mu.g/ml of whole protein or 25
.mu.g/ml of an appropriate peptide or graded numbers of cells
synthesizing HER-2/neu protein). It may be desirable to incubate
another aliquot of a T cell sample in the absence of HER-2/neu
protein to serve as a control.
[0048] Specific activation of CD4.sup.+ or CD8.sup.+ T cells may be
detected in a variety of ways. Methods for detecting specific T
cell activation include detecting the proliferation of T cells, the
production of cytokines (e.g., lymphokines), or the generation of
cytolytic activity (i.e., generation of cytotoxic T cells specific
for HER-2/neu protein). For CD4.sup.+ T cells, a preferred method
for detecting specific T cell activation is the detection of the
proliferation of T cells. For CD8.sup.+ T cells, a preferred method
for detecting specific T cell activation is the detection of the
generation of cytolytic activity.
[0049] Detection of the proliferation of T cells may be
accomplished by a variety of known techniques. For example, T cell
proliferation can be detected by measuring the rate of DNA
synthesis. T cells which have been stimulated to proliferate
exhibit an increased rate of DNA synthesis. A typical way to
measure the rate of DNA synthesis is, for example, by
pulse-labeling cultures of T cells with tritiated thymidine, a
nucleoside precursor which is incorporated into newly synthesized
DNA. The amount of tritiated thymidine incorporated can be
determined using a liquid scintillation spectrophotometer. Other
ways to detect T cell proliferation include measuring increases in
interleukin-2 (IL-2) production, Ca.sup.2+ flux, or dye uptake,
such as 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium.
Alternatively, synthesis of lymphokines (such as interferon-gamma)
can be measured or the relative number of T cells that can respond
to intact p185.sup.HER-2/neu protein or peptide may be
quantified.
[0050] Intact p185.sup.HER-2/neu protein or peptides thereof which
are recognized by cytotoxic T cells may be used within the present
invention. The peptides may be naturally derived or produced based
upon an identified sequence. The peptides for CD8.sup.+ T cell
responses are generally 8-10 amino acids in length and the peptides
for CD4.sup.+ T cell responses are longer, e.g., 15-18 amino acids
in length. Peptides for CD8.sup.+ T cell responses vary according
to each individual's class I MHC molecules. An example of peptides
appropriate for CD8.sup.+ T cell responses (elicited by peptides
presented by HLA-A2.1 class I MHC molecules) are peptides which are
8-10 amino acids in length and contain a leucine at position 2
and/or a leucine or valine at position 9. Examples of peptides
(designated by one letter abbreviations for amino acids and
followed in parentheses by which residues of p185 they correspond)
suitable within the present invention for CD8.sup.+ T cell
responses in individuals that are HLA-A2.1 include peptides
consisting essentially of: HLYQGCQVV (p48-56) (Seq. ID No. 1);
QLFEDNYAL (p106-114) (Seq. ID No. 26); KIFGSLAFL (p369-377) (Seq.
ID No. 27); PLQPEQLQV (p391-399) (Seq. ID No. 2); PLTSIISAV
(p650-658) (Seq. ID No. 3); ILLVVVLGV (p661-669) (Seq. ID No. 4);
LLVVVLGVV (p662-670) (Seq. ID No. 5); RLLQETELV (p689-697) (Seq. ID
No. 6); ILDEAYVMAGV (p767-777) (Seq. ID No. 28); VMAGVGSPYV
(p773-782) (Seq. ID No. 29); CLTSTVQLV (p789-797) (Seq. ID No. 7);
DLAARNVLV (p845-853) (Seq. ID No. 8); VLVKSPNHV (p851-859) (Seq. ID
No. 9); TLSPGKNGV (p1172-1180) (Seq. ID No. 10); VLGVVFGIL
(p666-674) (Seq. ID No. 11); LIKRRQQKI (p674-682) (Seq. ID No. 12);
KIPVAIKVL (p747-755) (Seq. ID No. 13); ILDEAYVMA (p767-775) (Seq.
ID No. 14); QLMPYGCLL (p799-807) (Seq. ID No. 15); QIAKGMSYL
(p829-836) (Seq. ID No. 16); LLNWCMQIA (p822-830) (Seq. ID No. 17);
RLVHRDLAA (p840-848) (Seq. ID No. 18); DIDETEYHA (p871-879) (Seq.
ID No. 19); DLLEKGERL (p933-941) (Seq. ID No. 20); TIDVYMLMV
(p948-956) (Seq. ID No. 21); MIMVKCWMI (p953-961) (Seq. ID No. 22);
DLVDAEEYL (p1016-1024) (Seq. ID No. 23); GLEPSEEEA (p1062-1070)
(Seq. ID No. 24); or YLTPQGGAA (p1196-1204) (Seq. ID No. 25).
[0051] Peptides for CD4.sup.+ T cell responses vary according to
each individual's class II MHC molecules. Examples of peptides
suitable within the present invention for CD4.sup.+ T cell
responses include peptides consisting essentially of:
HLDMLRHLYQGCQVV (p42-56) (Seq. ID No. 30); PLQRLRIVRGTQLFE
(p95-109) (Seq. ID No. 31); RLRIVRGTQLFEDNYAL (p98-114) (Seq. ID
No. 61); LRSLTEILKGGVLIQ (p142-156) (Seq. ID No. 32);
VTYNTDTFESMPNPE (p272-286) (Seq. ID No. 33); NQEVTAEDGTQRCEK
(p319-333) (Seq. ID No. 56); TQRCEKCSKPCARVCYGL (p328-345) (Seq. ID
No. 60); HLREVRAVTSANIQE (p349-363) (Seq. ID No. 34);
VRAVTSANIQEFAGC (p353-367) (Seq. ID No. 35); NIQEFAGCKKIFGSL
(p360-374) (Seq. ID No. 36); KIFGSLAFLPESFDGD (p369-384) (Seq. ID
No. 62); LQVFETLEEITGYLY (p397-411) (Seq. ID No. 58);
QVFETLEEITGYLYI (p398-412) (Seq. ID No. 37); QVIRGRILHNGAYSL
(p429-443) (Seq. ID No. 57); QECVEECRVLQGLPR (p538-552) (Seq. ID
No. 38); ASPLTSIISAVVGIL (p648-662) (Seq. ID No. 59);
VVVLGVVFGILIKRR (p664-678) (Seq. ID No. 39); KYTMRRLLQETELVE
(p684-698) (Seq. ID No. 40); RRLLQETELVEPLTPS (p688-703) (Seq. ID
No. 63); GAMPNQAQMRILKET (p704-718) (Seq. ID No. 41);
VKVLGSGAFGTVYKG (p723-737) (Seq. ID No. 42); SPKANKEILDEAYVM
(p760-774) (Seq. ID No. 43); GVGSPYVSRLLGICL (p776-790) (Seq. ID
No. 44); SRLLGICLTSTVQLV (p783-797) (Seq. ID No. 45);
GSQDLLNWCMQIAKG (p818-832) (Seq. ID No. 46); VKITDFGLARLLDID
(p859-873) (Seq. ID No. 47); TVWELMTFGAKPYDG (p911-925) (Seq. ID
No. 48); PAREIPDLLEKGERL (p927-941) (Seq. ID No. 49);
RFRELVSEFSRMARD (p968-982) (Seq. ID No. 50); ELVSEFSRMARDPQ
(p971-984) (Seq. ID No. 64); EDDDMGDLVDAEEYL (p1010-1024) (Seq. ID
No. 51); GMGAAKGLQSLPTHD (p1091-1105) (Seq. ID No. 52);
TCSPQPEYVNQPDVR (p1132-1146) (Seq. ID No. 53); TLERPKTLSPGKNGV
(p1166-1180) (Seq. ID No. 54); or GGAVENPEYLTPQGG (p1188-1202)
(Seq. ID No. 55).
[0052] It will be evident to those of ordinary skill in the art
that other peptides may be produced for use within the present
invention, both for the HLA-A2.1 class I MHC molecule as well as
for the other class I and class II molecules. A variety of
techniques are well known for isolating or constructing peptides.
Suitable peptides are readily identified based upon the disclosure
provided herein. Additional suitable peptides include those which
are longer in length. For example, another peptide has an amino
acid sequence corresponding to that disclosed in FIG. 1 beginning
at about the lysine residue at amino acid position 676 and
extending to about the valine residue at amino acid position 1255.
Such a peptide may be extended (e.g., by the addition of one or
more amino acid residues selected, for example, from position 675
to about position 646 of FIG. 1) and/or truncated (e.g., by the
deletion of one or more amino acid residues from the carboxyl
terminus which is position 1255 of FIG. 1). Alternatively, suitable
peptides may be variations on other preferred peptides disclosed
herein. For example, variations on the peptide designated herein as
p650-658 include the extension and/or truncation by the addition or
deletion, respectively, of one or more amino acid residues
beginning at either position 650 or position 658 or both positions.
As an example, four amino acids are removed from the amino terminus
of p650-658 and four amino acids, such as the four adjacent to
position 658, are added to its carboxyl terminus (p654, IISAVVGIL,
Seq. ID No:70). Although this particular peptide variation results
in a peptide with the same number of total amino acids (nine), a
peptide variation on a preferred peptide need not be identical in
length. Variations in amino acid sequence that yield peptides
having substantially the same desired biological activity are
within the scope of the present invention.
[0053] For therapeutic purposes, CD4.sup.+ or CD8.sup.+ T cells
that proliferate in the presence of HER-2/neu protein can be
expanded in number either in vitro or in vivo. Proliferation of
such T cells in vitro may be accomplished in a variety of ways. For
example, the T cells can be re-exposed to HER-2/neu protein. It may
be desirable to repeat the exposure of T cells to the HER-2/neu
protein to induce proliferation. It may be further desirable to
include T cell growth factors, such as interleukin-2, and/or
stimulator cells which synthesize HER-2/neu protein. The addition
of stimulator cells is preferred where generating CD8.sup.+ T cell
responses. HER-2/neu protein-specific T cells can be grown to large
numbers in vitro with retention of specificity in response to
intermittent restimulation with the immunizing HER-2/neu protein.
Briefly, for the primary in vitro stimulation (IVS), large numbers
of lymphocytes (e.g., greater than 4.times.10.sup.7) are placed in
flasks with media containing human serum. HER-2/neu protein (e.g.,
peptide at 10 .mu.g/ml) is added directly as well as 5 .mu.g/ml
tetanus toxoid. The flasks are incubated at 37.degree. C. for 7
days. For the second IVS, at the end of the 7 days, T cells are
harvested and placed in new flasks with 2-3.times.10.sup.7
irradiated peripheral blood mononuclear cells. HER-2/neu protein
(e.g., peptide at 10 .mu.g/ml is added directly). The flasks are
incubated at 37.degree. C. for 7 days. On day 2 and day 4 after the
second IVS, 2-5 units of interleukin-2 (IL-2) is added. For the
third IVS, the T cells are placed in wells (e.g., 24 well plates).
The T cells are stimulated with the individual's own EBV
transformed B cells coated with the peptide. IL-2 is added on days
2 and 4 of each cycle. As soon as the cells are shown to be
specific cytotoxic T cells, they are changed to a 10 day
stimulation cycle with higher IL-2 (20 units) on days 2, 4 and 6 to
expand them.
[0054] Alternatively, one or more T cells that proliferate in the
presence of HER-2/neu protein can be expanded in number by cloning.
Methods for cloning cells are well known in the art. For example, T
cell lines may be established in vitro and cloned by limiting
dilution. Responder T cells are purified from the peripheral blood
of sensitized patients by density gradient centrifugation and sheep
red cell rosetting and established in culture by stimulating with
the nominal antigen in the presence of irradiated autologous filler
cells. In order to generate CD4.sup.+ T cell lines, HER-2/neu
protein is used as the antigenic stimulus and autologous peripheral
blood lymphocytes (PBL) or lymphoblastoid cell lines (LCL)
immortalized by infection with Epstein Barr virus are used as
antigen presenting cells. In order to generate CD8.sup.+ T cell
lines, autologous antigen-presenting cells transfected with an
expression vector which produces relevant HER-2/neu protein may be
used as stimulator cells. Established T cell lines are cloned 2-4
days following antigen stimulation by plating stimulated T cells at
a frequency of 0.5 cells per well in 96-well flat-bottom plates
with 1.times.10.sup.6 irradiated PBL or LCL cells and recombinant
interleukin-2 (rIL2) (50 U/ml). Wells with established clonal
growth are identified at approximately 2-3 weeks after initial
plating and restimulated with appropriate antigen in the presence
of autologous antigen-presenting cells, then subsequently expanded
by the addition of low doses of rIL2 (10 U/ml) 2-3 days following
antigen stimulation. T cell clones are maintained in 24-well plates
by periodic restimulation with antigen and rIL2 approximately every
two weeks.
[0055] Regardless of how an individual's T cells are proliferated
in vitro, the T cells may be administered to the individual as an
anti-cancer composition in an amount effective for therapeutic
attack against a tumor. Thus, a patient's own T cells
(autochthonous T cells) can be used as reagents to mediate specific
tumor therapy. Typically, about 1.times.10.sup.9 to
1.times.10.sup.11 T cells/M.sup.2 will be administered
intravenously or intracavitary, e.g., in pleural or peritoneal
cavities, or in the bed of a resected tumor. It will be evident to
those skilled in the art that the number and frequency of
administration will be dependent upon the response of the patient.
Pharmaceutically suitable carriers or diluents for T cells include
physiological saline or sera. It will be recognized by one skilled
in the art that the composition should be prepared in sterile
form.
[0056] T cells may also be proliferated in vivo. For example,
immunization of an individual with a HER-2/neu peptide (i.e., as a
vaccine) can induce continued expansion in the number of T cells
necessary for therapeutic attack against a tumor in which the
HER-2/neu oncogene is associated. Typically, about 0.01 .mu.g/kg to
about 100 mg/kg body weight will be administered by the
intradermal, subcutaneous or intravenous route. A preferred dosage
is about 1 .mu.g/kg to about 1 mg/kg, with about 5 .mu.g/kg to
about 200 .mu.g/kg particularly preferred. It will be evident to
those skilled in the art that the number and frequency of
administration will be dependent upon the response of the patient.
It may be desirable to administer the HER-2/neu peptide
repetitively. It will be evident to those skilled in this art that
more than one HER-2/neu peptide may be administered, either
simultaneously or sequentially. For example, a combination of about
8-15 peptides may be used for immunization. Preferred peptides for
immunization are those that include all or a portion of the amino
acid sequence shown in FIG. 1 beginning at about the lysine residue
at amino acid position 676 and extending to about the valine
residue at amino acid position 1255. One or more peptides from
other portions of the amino acid sequence shown in FIG. 1 may be
added to one or more of the preferred peptides. Neither intact
p185.sup.HER-2/neu protein nor a peptide having the amino acid
sequence of its entire extracellular domain (i.e., a peptide having
an amino acid sequence of the entire amino acid sequence shown in
FIG. 1 up to amino acid position 650, plus or minus about one to
five positions, and with or without the first 21 amino acid
positions) are used alone for immunization.
[0057] In addition to the HER-2/neu peptide (which functions as an
antigen), it may be desirable to include other components in the
vaccine, such as a vehicle for antigen delivery and
immunostimulatory substances designed to enhance the protein's
immunogenicity. Examples of vehicles for antigen delivery include
aluminum salts, water-in-oil emulsions, biodegradable oil vehicles,
oil-in-water emulsions, biodegradable microcapsules, and liposomes.
Examples of immunostimulatory substances (adjuvants) include
N-acetylmuramyl-L-alanine-D-isoglutamine (MDP),
lipopoly-saccharides (LPS), glucan, IL-12, GM-CSF, gamma interferon
and IL-15. It will be evident to those skilled in this art that a
HER-2/neu peptide may be prepared synthetically or that a portion
of the protein (naturally-derived or synthetic) may be used. When a
peptide is used without additional sequences, it may be desirable
to couple the peptide hapten to a carrier substance, such as
keyhole limpet hemocyanin.
[0058] The present invention also discloses that HER-2/neu protein,
in addition to being immunogenic to T cells, appears to stimulate
B-cells to produce antibodies capable of recognizing HER-2/neu
protein. Detection of such antibodies provides another way to
diagnose a malignancy in which a HER-2/neu oncogene is associated
with the malignancy. Antibodies specific (i.e., which exhibit a
binding affinity of about 10.sup.7 liters/mole or better) for
HER-2/neu protein may be found in a variety of body fluids
including sera and ascites. Briefly, a body fluid sample is
isolated from a warm-blooded animal, such as a human, for whom it
is desired to determine whether antibodies specific for HER-2/neu
are present. The body fluid is incubated with HER-2/neu protein
under conditions and for a time sufficient to permit
immunocomplexes to form between the protein and antibodies specific
for the protein. For example, a body fluid and HER-2/neu protein
may be incubated at 4.degree. C. for 24-48 hours. Following the
incubation, the reaction mixture is tested for the presence of
immunocomplexes. Detection of one or more immunocomplexes formed
between HER-2/neu protein and antibodies specific for HER-2/neu
protein may be accomplished by a variety of known techniques, such
as radioimmunoassays (RIA) and enzyme linked immunosorbent assays
(ELISA).
[0059] Suitable immunoassays include the double monoclonal antibody
sandwich immunoassay technique of David et al. (U.S. Pat. No.
4,376,110); monoclonal-polyclonal antibody sandwich assays (Wide et
al., in Kirkham and Hunter, eds., Radioimmunoassay Methods, E. and
S. Livingstone, Edinburgh, 1970); the "western blot" method of
Gordon et al. (U.S. Pat. No. 4,452,901); immunoprecipitation of
labeled ligand (Brown et al., J. Biol. Chem. 255:4980-4983, 1980);
enzyme-linked immunosorbent assays as described by, for example,
Raines and Ross (J. Biol. Chem. 257:5154-5160, 1982);
immunocytochemical techniques, including the use of fluorochromes
(Brooks et al., Clin. Exp. Immunol. 39: 477, 1980); and
neutralization of activity [Bowen-Pope et al., Proc. Natl. Acad.
Sci. USA 81:2396-2400 (1984)], all of which are hereby incorporated
by reference. In addition to the immunoassays described above, a
number of other immunoassays are available, including those
described in U.S. Pat. Nos. 3,817,827; 3,850,752; 3,901,654;
3,935,074; 3,984,533; 3,996,345; 4,034,074; and 4,098,876, all of
which are herein incorporated by reference.
[0060] For detection purposes, HER-2/neu protein ("antigen") may
either be labeled or unlabeled. When unlabeled, the antigen find
use in agglutination assays. In addition, unlabeled antigen can be
used in combination with labeled molecules that are reactive with
immunocomplexes, or in combination with labeled antibodies (second
antibodies) that are reactive with the antibody directed against
HER-2/neu protein, such as antibodies specific for immunoglobulin.
Alternatively, the antigen can be directly labeled. Where it is
labeled, the reporter group can include radioisotopes,
fluorophores, enzymes, luminescers, or dye particles. These and
other labels are well known in the art and are described, for
example, in the following U.S. patents: U.S. Pat. Nos. 3,766,162;
3,791,932; 3,817,837; 3,996,345; and 4,233,402.
[0061] Typically in an ELISA assay, antigen is adsorbed to the
surface of a microtiter well. Residual protein-binding sites on the
surface are then blocked with an appropriate agent, such as bovine
serum albumin (BSA), heat-inactivated normal goat serum (NGS), or
BLOTTO (buffered solution of nonfat dry milk which also contains a
preservative, salts, and an antifoaming agent). The well is then
incubated with a sample suspected of containing specific antibody.
The sample can be applied neat, or, more often, it can be diluted,
usually in a buffered solution which contains a small amount
(0.1%-5.0% by weight) of protein, such as BSA, NGS, or BLOTTO.
After incubating for a sufficient length of time to allow specific
binding to occur, the well is washed to remove unbound protein and
then incubated with an anti-species specific immunoglobulin
antibody labeled with a reporter group. The reporter group can be
chosen from a variety of enzymes, including horseradish peroxidase,
beta-galactosidase, alkaline phosphatase, and glucose oxidase.
Sufficient time is allowed for specific binding to occur, then the
well is again washed to remove unbound conjugate, and the substrate
for the enzyme is added. Color is allowed to develop and the
optical density of the contents of the well is determined visually
or instrumentally.
[0062] In one preferred embodiment of this aspect of the present
invention, a reporter group is bound to HER-2/neu protein. The step
of detecting immunocomplexes involves removing substantially any
unbound HER-2/neu protein and then detecting the presence or
absence of the reporter group.
[0063] In another preferred embodiment, a reporter group is bound
to a second antibody capable of binding to the antibodies specific
for HER-2/neu protein. The step of detecting immunocomplexes
involves (a) removing substantially any unbound antibody, (b)
adding the second antibody, (c) removing substantially any unbound
second antibody and then (d) detecting the presence or absence of
the reporter group. Where the antibody specific for HER-2/neu
protein is derived from a human, the second antibody is an
anti-human antibody.
[0064] In a third preferred embodiment for detecting
immunocomplexes, a reporter group is bound to a molecule capable of
binding to the immunocomplexes. The step of detecting involves (a)
adding the molecule, (b) removing substantially any unbound
molecule, and then (c) detecting the presence or absence of the
reporter group. An example of a molecule capable of binding to the
immunocomplexes is protein A.
[0065] It will be evident to one skilled in the art that a variety
of methods for detecting the immunocomplexes may be employed within
the present invention. Reporter groups suitable for use in any of
the methods include radioisotopes, fluorophores, enzymes,
luminescers, and dye particles.
[0066] In a related aspect of the present invention, detection of
immunocomplexes formed between HER-2/neu protein and antibodies in
body fluid which are specific for HER-2/neu protein may be used to
monitor the effectiveness of cancer therapy for a malignancy in
which the HER-2/neu oncogene is associated. Samples of body fluid
taken from an individual prior to and subsequent to initiation of
therapy may be analyzed for the immunocomplexes by the
methodologies described above. Briefly, the number of
immunocomplexes detected in both samples are compared. A
substantial change in the number of immunocomplexes in the second
sample (post-therapy initiation) relative to the first sample
(pre-therapy) reflects successful therapy.
[0067] The following examples are offered by way of illustration
and not by way of limitation.
EXAMPLES
Example 1
CD4+ T Cells Responsive to P185(HER-2/NEU) Protein and Peptides can
be Detected in Higher Frequency in Patients with Breast Cancer than
Normal Individuals
[0068] A. p185(HER-2/neu) Protein Contains Multiple Segments with
Amino Acid Sequences Appropriate for Binding to Class II MHC
Molecules
[0069] Soluble proteins are classically processed in the class II
MHC pathway. p185.sup.HER-2/neu protein is a transmembrane protein
present at the cell surface. When overexpressed, it has been found
to be soluble and in the extracellular environment both in vitro
and in vivo. In vitro studies of human breast cancer cell lines
found the extracellular domain of p185.sup.HER-2/neu in culture
media of rapidly growing cells (Alper et al., Cell Growth and
Differentiation 1:591-599, 1990; Zabrecky et al., J. Biol. Chem.
266:1716-1720, 1991). In vivo studies identified circulating
portions of the protein in the sera of patients with breast cancer
(Leitzel et al., J. Clin. Oncol. 10:1436-1443, 1992; Mori et al.,
Jpn. J. Cancer Res. 81:489-494, 1990).
[0070] Peptide segments of the parental HER-2/neu protein with a
motif with theoretical potential to bind to class II MHC molecules
were identified herein. Locating potential T cell epitopes was
aided by computer analysis. A protein sequence analysis package, T
Sites, that incorporates several computer algorithms designed to
distinguish potential sites for T cell recognition was used (Feller
and de la Cruz, Nature 349:720-721, 1991). Two searching algorithms
were used: (1) the AMPHI algorithm described by Margalit (Feller
and de la Cruz, Nature 349:720-721, 1991; Margalit et al., J.
Immunol. 138:2213-2229, 1987) identified epitope motifs according
to alpha-helical periodicity and amphipathicity; (2) the Rothbard
and Taylor algorithm identified epitope motifs according to charge
and polarity pattern (Rothbard and Taylor, EMBO 7:93-100, 1988).
Segments with both motifs are most appropriate for binding to class
II MHC molecules, with the caveat that each particular MHC molecule
has a particular binding motif. Using this analysis, more than 40
potential T cell epitopes in the HER-2/neu protein corresponding to
the AMPHI and the Rothbard motifs that would have the potential for
binding to class II MHC molecules were identified (FIG. 1).
[0071] Peptides, each 15 amino acids in length, that encompass both
the AMPHI and Rothbard motifs were constructed. The optimal peptide
length for class II MHC binding depends upon the particular MHC
molecule and may be shorter than 15 amino acids. However, class II
MHC responses to exogenous peptides allow for endocytosis and
intracellular processing of longer peptides. One of the synthetic
peptides (p42-56), HLDMLRHLYQGCQVV (Seq. ID No. 30), is located in
the extracellular domain and has 33% homology to epidermal growth
factor receptor (EGFR). Two other synthetic peptides,
SRLLGICLTSTVQLV (p783-797) (Seq. ID No. 45) and TLERPKTLSPGKNGV
(p1166-1180) (Seq. ID No. 54) are both located in the intracellular
domain and have 87% and 7% homology to EGFR respectively. The
peptides as well as partially purified whole protein
(p185.sup.HER-2/neu) were used in subsequent defined experiments to
detect CD4+ T cell proliferation responses (Section C below).
B. p185(HER-2/neu) Protein can be Obtained and Purified from the
Human Breast Adenocarcinoma Cell Line SKBR3
[0072] Purified p185 for T cell proliferation studies and antibody
detection studies was obtained from the cell line SKBR3. SKBR3 has
been reported on extensively in the literature as a commonly used
standard cell line with increased HER-2/neu gene copy number and
HER-2/neu protein overexpression. In one study, SKBR3 cells were
found to contain a mean HER-2/neu oncogene copy number of 43
copies/cell compared with 2.5 copies/cell for MCF-7, a breast
cancer cell line considered to be a standard cell line without
HER-2/neu gene amplification (Kallionieme et al., Proc. Natl. Acad.
Sci. USA 89:5321-5325, 1992). SKBR.sup.3 is reported to be one of
the highest known expressors of p185.sup.HER-2/neu protein by
immunohistochemistry, 4+ compared to 1+ in MCF-7 (Kerns et al., J.
Histochem. & Cytochem. 38:1823-1830, 1990). The same HER-2/neu
bands as described in the literature were validated in the present
experiments by Western analysis. Bands detected included p185, p105
(extracellular domain), and several smaller bands that presumably
represent fragments of phosphorylated protein (Alper et al., Cell
Growth and Differentiation 1:591-599, 1990; Zabrecky et al., J.
Biol. Chem. 266:1716-1720, 1991; Stern et al., Mol. Cell. Biol.
8:3969-3973, 1988).
[0073] The antibodies used for detecting the HER-2/neu protein
immunoblotting were commercially prepared by Oncogene Science
(Manhasset, N.Y.). The antibody most commonly used in the present
experiments was c-neu Ab-3; derived by immunization of BALB/c mice
with a peptide sequence, TAENPEYLGLDVPV (Seq. ID No. 65), from the
carboxyl domain of human c-neu gene product, and fusion of mouse
splenocytes with SP2/0 myeloma cells. A second antibody, c-neu
AB-1, gave very faint bands when compared with c-neu Ab-3. This
antibody was a polyclonal rabbit affinity purified antibody against
the peptide sequence, LARLLDIDETEYAD (Seq. ID No. 66), from the
kinase domain of the human c-neu gene product.
[0074] Transmembrane p185.sup.HER-2/neu protein was purified from
the cell membrane fraction of SKBR3 by modifications of described
methods for other membrane-associated proteins (Dhut et al,
Leukemia 4:745-750, 1990; Mietzner et al., J. Exp. Med.
165:1041-1057, 1987). Three.times.10.sup.6 SKBR3 cells were
harvested and suspended in phosphate buffered saline (PBS) with the
following protease inhibitors; 1 mM PMSF, 1 mM benzamidine, 5
.mu.g/ml aprotinin. All procedures were done on ice or at 4.degree.
C. The cells were then disrupted by sonication at 75 W for a total
of 1 minute using a high intensity sonifier equipped with a
microtip (Branson Instruments, Inc., Stamford, Conn.). The
resulting suspension was then centrifuged for 1 hour at 35,000 rpm
to sediment membranes from cytosolic fraction. The membrane pellet
was washed in ice cold PBS with protease inhibitors and the cycle
of sonication/centrifugation was repeated twice. All cytosolic
(supernatant) and membranous fractions were tested for the presence
of p185.sup.HER-2/neu by Western analysis. The protein was noted to
be strongly concentrated in the membrane fraction.
[0075] Protein concentration of one of these enriched membrane
pellets was determined to be 2625 .mu.g/ml (Protein BioRad assay).
p185.sup.HER-2/neu is an estimated 8% of membrane protein in SKBR3
(Leitzel et al., J. Clin. Oncol. 10:1436-1443, 1992); therefore, an
estimated 210 .mu.g of p185.sup.HER-2/neu were present in the
membrane pellet from 3.times.10.sup.6 SKBR.sup.3 cells.
[0076] If desired, the membrane preparation may be further enriched
for p185.sup.HER-2/neu, e.g., by immunoprecipitation. Briefly, 1
.mu.g of c-neu 3 antibody and 15 .mu.l protein A agarose were added
to the sonicated membrane pellet. The mixture was incubated at
4.degree. C. on a rocker for 24 hours. The immunoprecipitate was
collected by centrifugation in a micro-centrifuge at 2500 rpm for
15 minutes at 4.degree. C., and the resulting pellet was washed
several times with PBS, 1% Trition X-100, 0.5% sodium deoxycholate,
and 0.1% sodium dodecyl sulfate. Silver stain and Western analysis
showed increased concentration of p185.sup.HER-2/neu protein and
decreases in extraneous membrane proteins when compared to membrane
enriched pellets alone.
C. CD4+ T Cells Reactive to p185(HER-2/neu) Protein can be Elicited
from PBL of Normal Individuals by Using an Assay Designed for
Detecting Low Frequency Lymphocyte Precursors
[0077] Three assays were used for the detection of CD4.sup.+
responses: a standard proliferation assay, a screening method for
low frequency events, and a limiting dilution assay (LDA).
Conventional proliferative assays are capable of readily detecting
primed responses. The proliferative response stimulation index
provides a rough correlation with precursor frequency of
antigen-reactive T cells. Any specific proliferative response
detected from PBL is considered to be a primed response.
[0078] To provide a more quantitative interpretation of CD4.sup.+ T
cell responses, the assay system developed for detecting low
lymphocyte precursor frequency responses (described below) is used.
This assay is simple and cost-effective. In circumstances in which
more precision is needed, the precursor frequency is validated by
limiting dilution assays (Bishop and Orosz, Transplantation
47:671-677, 1989).
[0079] Responses greater than detected in normal individuals are
defined as a primed response and imply existent immunity. Low
responses, detectable only by LDA conditions are considered to be
unprimed responses. An absent response by LDA or a response lower
than that defined by the normal population analysis is considered
to be tolerance/anergy.
[0080] In general, primed CD4.sup.+ T cell responses can be
detected in conventional proliferative assays, whereas unprimed
responses are not detectable in the same assays. Detection of small
numbers of unprimed T cells is limited by confounding background
thymidine uptake including the autologous mixed lymphocyte response
(AMLR) to self MHC antigen plus responses to processed self serum
proteins and exogenously added serum proteins.
[0081] To elicit and detect unprimed T cells, an assay system for
low frequency responses based on Poisson sampling statistics was
used (In: Pinnacles, Chiron Corporation, 1:1-2, 1991). This type of
analysis applies specifically to low frequency events in that, if
the precursor frequency is less than the number of cells in one
replicate culture, many replicates are required to detect a
statistically significant number of positives. Theoretically, the
analysis will correct for autologous responses by setting up a
known positive control (such as PHA or tetanus toxoid) and known
negative control (no antigen) and evaluating all data points from
lowest to highest irrespective of the experimental group to which
they belong. A cutoff value is calculated based on the equation
cutoff=M+(F+SD), where M=arithmetic mean, F=3.29, a factor from
tables of standardized normal distribution chosen so not more than
0.1% of the "true negatives" of a normally distributed background
will be above the cutoff, and SD=standard deviation. In this
screening assay, wells above the cutoff are considered true
positives that potentially contain a lymphocyte that is
specifically proliferating to the antigen of interest. Although
estimations of lymphocyte precursor frequency is possible using
this method, precise determination requires formal LDA
analysis.
[0082] Analysis of PBL from normal individuals for HER-2/neu
peptide and protein-specific T cells revealed the presence of a low
level frequency of proliferative responses. A representative assay
is described in FIG. 2. Seven normal subjects were analyzed, 4
males and 3 females. Of the seven individuals evaluated, 57% had a
response to whole protein and 29% had a response to at least one
individual peptide. The two individuals that responded to peptide
also had responses to parental protein. Three males and one female
had detectable responses to the whole protein. Two males responded
to one of the four peptides. Similar methods can be used to elicit
HER-2/neu reactive T cells from patients with HER-2/neu positive
malignancies, but no prior priming in vivo. Alternatively, the
methods can be used to assess the efficacy of priming to HER-2/neu
in vivo and the procurement of immune T cells to be expanded for
therapy.
D. CD4+ T Cells Reactive to p185(HER-2/neu) and Peptide can be
Detected in the Peripheral Blood of Patients with HER-2/neu
Positive Breast Cancer in Levels Consistent with a Primed
Response
[0083] Four breast cancer patients with known HER-2/neu tumor
status have been evaluated in a standard proliferation assay. Three
patients had tumors which overexpressed the HER-2/neu protein.
Proliferation to antigen was consistent with a primed response
(FIG. 3) (i.e., proliferation was detectable in a standard
proliferation assay with a Stimulation Index (S.I.) greater than
2). One patient was HER-2/neu negative and had a response towards
intact HER-2/neu, but no response to HER-2/neu-derived peptides.
The patients tested and chosen had different stages of disease and
were in different stages of treatment. Five normal individuals'
responses were analyzed in the same fashion, and none had an S.I.
greater than 2 to any HER-2/neu protein or peptide (Table 1).
TABLE-US-00003 TABLE 1 (a) Breast Cancer patients HER-2/neu p783-
p1166- Patient Status TetanusToxoid p185 p42-56 797 1180 A Negative
52 13 2 2 2 B Positive 36 <2 26 19 2 C Positive 7 4 <2 <2
<2 D Positive 10 4 4 5 <2 (b) Normal Individuals Normal
TetanusToxoid p185 p42-56 p783-797 p1166-1180 1 6 2 2 <2 <2 2
7 <2 2 <2 <2 3 7 <2 <2 <2 <2 4 10 2 ND ND
<2 5 11 2 ND ND 2
Example 2
CD8.sup.+ CTL Specific for HER-2/NEU Peptides can be Generated from
PBL of Normal Individuals by Primary In Vitro Immunization to
Synthetic Peptides Derived from the Normal Amino Acid Sequence of
P185(HER-2/NEU) Protein
[0084] A. p185(HER-2/neu) Protein Contains Multiple Segments with
an Amino Acid Sequence Motif Appropriate for Binding the Class I
MHC Molecule HLA-A2.1
[0085] CD8.sup.+ T cells recognize peptide bound to class I MHC
molecules. In general, peptide determinants are derived from
endogenously synthesized proteins. The rules which determine the
ability of a protein to be processed and complexed with class I MHC
molecules are not completely understood. Recently, however, it has
been determined that peptides binding to particular MHC molecules
share discernible sequence motifs (Falk et al., Nature 351:290-296,
1991). A peptide motif for binding in the groove of HLA-A2.1 has
been defined by Edman degradation of peptides stripped from
HLA-A2.1 molecules of a cultured cell line (Table 2, from Falk et
al., supra). The method identified the typical or average HLA-A2.1
binding peptide as being 9 amino acids in length with dominant
anchor residues occurring at positions 2 (L) and 9 (V). Commonly
occurring strong binding residues have been identified at positions
2 (M), 4 (E,K), 6 (V), and 8 (K). The identified motif represents
the average of many binding peptides.
TABLE-US-00004 TABLE 2 The HLA-A2.1 Restricted Motif Amino Acid
Position Point 1 2 3 4 5 6 7 8 9 Assignment Dominant Binding L V +3
Anchor Residue Strong Binding M K E V K +2 Residue Weak Binding I A
G I I A E L +1 Residue L Y P K L Y S F F D Y T H K P T N M M G Y S
V H
[0086] The derived peptide motif as currently defined is not
particularly stringent. Some HLA-A2.1 binding peptides do not
contain both dominant anchor residues and the amino acids flanking
the dominant anchor residues play major roles in allowing or
disallowing binding. Not every peptide with the current described
binding motif will bind, and some peptides without the motif will
bind. However, the current motif is valid enough to allow
identification of some peptides capable of binding.
[0087] According to the current motif, the p185.sup.HER-2/neu
protein contains a substantial number of peptides with amino acid
sequences possibly appropriate for binding to the class I MHC
antigen HLA-A2.1. Evaluation of the 1255 aa structure of
p185.sup.HER-2/neu revealed at least 19 peptide segments of 9 aa in
length that contained at least one of the dominant anchor residues.
Of note, the current HLA-A2.1 motif places 6 amino acids between
the dominant anchor amino acids at residues 2 and 9. Recent studies
show that alterations in secondary structure of peptides can
sometimes allow for additional intervening residues, and thus
longer binding peptides. In the present experiment, 9-mer peptides
were evaluated. The 10 peptides with both dominant residues were
considered. The arbitrary scoring system awarded +3 for a dominant
anchor residue, +2 for a strong binding residue, and +1 for a weak
binding residue. Emphasis was placed on presence or absence of
dominant anchor residues as they appear to be of prime importance
for peptide binding to HLA-A2 (Parker et al., J. Immunol.
148:3580-3587, 1992). Four peptides were synthesized (Table 3). One
is located in the extracellular domain of the protein and three are
located in the intracellular domain. Homology to EGFR ranges from
11% to 89% (Bargmann et al., Nature 319:226-230, 1986).
TABLE-US-00005 TABLE 3 .sub.p185HER2/neu Peptides Constructed for
Binding in HLA-A2.1 Motif Amino Acid .sub.p185HER-2/neu Position
Homology Peptides 1 2 3 4 5 6 7 8 9 Score Location to EGFR
.sub.p48-56HER-2/neu H L Y Q G C Q V V 8* Extracellular 33% (Seq.
ID No. 1) .sub.p789-797HER-2/neu C L T S T V Q L V 9* Intracellular
89% (Seq. ID No. 7) .sub.p851-859HER-2/neu V L V K S P N H V 9*
Intracellular 78% (Seq. ID No. 9) .sub.p1172-1180HER2/neu T L S P G
K N G V 9* Intracellular 11% (Seq. ID No. 10) *Peptide contains
both dominant anchor residues
B. Four of Four Peptides with a Motif Theoretically Appropriate for
Binding to HLA-A2.1 can be Shown to Actually Bind to HLA-A2.1 in a
Class I MHC Molecule Stabilization Assay
[0088] Having identified and synthesized peptides with a
theoretical likelihood of binding to HLA-A2.1, the constructed
peptides were evaluated as to whether in fact they could bind, the
sine quo non of cytotoxic T lymphocytes (CTL) generation. Of the
four peptides constructed, all could be shown to bind to HLA-A2 in
an assay utilizing the mutant cell line T2. T2 is a human T-B cell
hybrid that has a large homozygous deletion within the MHC gene
region (Riberdy and Cresswell, J. Immunol. 148:2586-2590, 1992;
Trousdale et al., Nature 348:741-744, 1990; Spies et al., Nature
348:744-747, 1990). The use of T2 to determine HLA-A2.1 binding
peptides has been well defined. T2 does not appropriately process
endogenous antigen for presentation with class I MHC molecules.
Consequently, cell surface expression of class I MHC molecules is
markedly reduced. However, provision of exogenous peptides which
bind to and stabilize class I MHC in the presence of B2
microglobulin results in increased levels of class I at cell
surface which can be easily detected by immunofluorescent staining.
T2 without exogenous peptide has low expression of HLA-A2
(30%-50%). When incubated with peptides able to bind A2, the level
of class I MHC stabilizes on the cell surface and can be measured
by immunofluorescent staining. Thus, the T2 line fails to present
internal proteins in the class I pathway, but can bind exogenous
peptides, providing that the exogenous peptides have the
appropriate HLA-A2.1 binding motif.
[0089] In this experiment, 1.times.10.sup.6 T2 cells were incubated
with individual peptides at a concentration of 25 .mu.g/ml for 18
hours at 37.degree. C. Binding of peptides to HLA-A2 was determined
by immunofluorescent staining with a mouse monoclonal HLA-A2
antibody followed by rabbit antimouse IgG-FITC conjugate. The
peptides which bound HLA-A2 increased class I surface expression to
60%-85% (10-15 percentage points over baseline).
C. CD8.sup.+ CTL Specific for HER-2/neu p48-56 and p789-797 can be
Generated by Primary In Vitro Immunization
[0090] In general, detection of T cell responses in vitro implies
prior priming has occurred in vivo. It has been difficult and rare
to generate CTL in vitro from unprimed populations.
[0091] Conditions for detecting immunity to standard recall
antigens were used and no peptide-specific CTL could be detected. A
set of conditions were derived which have allowed priming to 4 of 4
of the binding peptides tested to date. The conditions were derived
by empiric experimentation but are consistent with the current
paradigm. Conditions include: (1) large numbers of T cells; (2) a
concurrent stimulated primed CD4.sup.+ T cell response; (3) IL-2
added late to culture in very small amounts; and (4) multiple
restimulations.
[0092] Initial experiments examined response to p48-56 which is
normally present in the extracellular domain and p789-797 which is
normally present in the intracellular domain, both of which were
found to bind to HLA-A2.1. Four of four peptides with a motif
theoretically appropriate for binding to HLA-A2.1 are shown to
actually bind to HLA-A2.1 in a class I MHC molecule stabilization
assay (Table 4). T2 cells were incubated for 18 hours with the
depicted synthetic p185.sup.HER-2/neu peptides. Cells were then
washed and stained with antihuman HLA-A2 antibody (3%), a second
step FITC-conjugated antibody (3%) was then added. The % increase
of class I on cell surface as measured by increased fluorescent
intensity of cells incubated with peptide compared to cells
incubated in medium alone is indicated.
TABLE-US-00006 TABLE 4 p185.sup.HER-2/neu % Increase of class I
Peptides stabilization on T2 p48-56 20% p789-797 20% p851-859 12%
p1172-1180 10%
[0093] After leukapheresis of a normal homozygous HLA-A2
individual, bulk cultures of lymphocytes (3.times.10.sup.7) were
incubated with peptide in a concentration of 10 .mu.g peptide/ml.
An individual homozygous for HLA-A2.1 was used on the presumption
that a double dose of the MHC/peptide complex would allow more
effective priming. Large numbers of lymphocytes were used to
overcome the presumed low frequency of precursors. Generation of
CD8.sup.+ CTL responses has long been known to require concurrent
stimulation of CD4.sup.+ T cell responses to provide
help/amplification. Both peptides used were chosen for class I MHC
binding, and presumably could not stimulate CD4.sup.+ helper T
cells. To provide T cell help, low concentrations (5 .mu.g/ml) of
tetanus toxoid were added to culture along with peptide. So as not
to overwhelm or dominate the culture with the tetanus toxoid
response, titrations of tetanus toxoid had previously been assessed
in a standard proliferation assay with the donor's lymphocytes and
the concentration of tetanus toxoid that provided the lowest
detectable stimulation index was used.
[0094] Low doses of IL-2 added late to culture were used to
maintain lymphocyte proliferation. Within the present disclosure,
standard conditions for expanding in vivo primed CTL following
secondary sensitization in vitro usually have included IL-2 at 5-10
U/ml on day 2 of stimulation. Under primary in vitro immunization
conditions, similar concentrations of IL-2 induced expansion of
non-specifically lytic NK and T cells, presumably due to the
predominance of NK cells and AMLR responsive cells relative to
peptide-specific CTL. For in vitro priming, the T cell culture
received no IL-2 for the first 10 days, with only 1 unit/ml
administered on day +2 after the second IVS. Thereafter, IL-2 at 2
U/ml could be administered on day +2 and day +4 of the 7 day
stimulation cycle. T cells were stimulated with peptide on
irradiated PBL as APC every 7 days. Evaluation for specific lytic
function was performed after the fourth IVS and revealed specific
lytic activity but substantial non-specific lytic NK and T cell
activity. Routine .sup.51Cr release assay performed after the tenth
IVS (FIG. 4) revealed greater than 50% lysis for both bulk T cell
lines. Lysis against control targets of K562 and Daudi was less
than 2%.
Example 3
Antibodies Directed Against HER-2/NEU Protein can be Detected in
the Sera of Patients with Breast Cancer
[0095] A. Antibodies Directed Against p185(HER-2/neu) Protein and
p105(HER-2/neu) Extracellular Domain were Detected in the Sera of
Some Breast Cancer Patients
[0096] The sera of 20 patients with breast cancer were analyzed.
The 20 patients were participants from the Fred Hutchinson Cancer
Research Center, Division of Epidemiology WISH study. The patient
population consisted of women recently diagnosed with breast
cancer, generally less than 3 months from surgery. Their age was
less than 55 and their HER-2/neu tumor status was unknown.
Anti-p185 antibody was found in 55% of the group as evidenced by
bands corresponding to the positive control.
[0097] Antibody analysis was based on a modification of standard
Western blotting techniques (Laemmli, Nature 227:680-685, 1970;
Burnett, Anal. Biochem. 112:195-203, 1981). A 7.5% SDS
polyacrylamide gel was poured with a single 12 cm long comb in the
stacking gel to create a "trough." Two immunoprecipitated SKBR3
membrane preparations, described above, were dissolved in loading
buffer and layered across the trough. The gel was then run in
standard fashion resulting in a band of equally distributed
proteins across the gel. The protein was transferred to
nitrocellulose (Amersham Hybond) for subsequent immunoblotting and
development by chemiluminescence methods (Amersham ECL). Once
protein transfer was complete, the nitrocellulose was cut
lengthwise into 25 equal strips and placed in a 25 well incubation
tray. The nitrocellulose strips were then blocked with Tris
buffered saline and 1% bovine serum albumin (TBS BSA) for 1 hour.
This allows for analysis of 23 patients with 2 control strips.
Patient sera is used as primary antibody, and after blocking, the
strips are incubated for 24 hours at 4.degree. C. with sera diluted
1:200 and 1:400 in TBS BSA. The second antibody is a goat antihuman
HRP conjugate which will interact with the chemiluminescent
developing reagent (Amersham ECL) resulting in light emission which
can be photographed. A control strip is developed with c-neu Ab3
antibody previously described in a similar fashion with this assay
both IgA and IgG antibody specific for p185 were detected. Patient
sera identified the same p185 band (FIG. 5) as did the known
HER-2/neu-specific antibody, providing evidence that some patients
have existent antibody immunity to HER-2/neu.
[0098] To validate these responses patient sera was tested against
a murine cell line (NIH 3T3) that had been transfected with
HER-2/neu cDNA. As a negative control, untransfected cells were
used. Membrane preparations were prepared from the two cell lines
and patient sera was used as primary antibody as previously
described. The patient sera identified the same p185 band as did
the known HER-2/neu-specific antibody. That band was present in the
cells that contained HER-2/neu, but undetectable in the cells that
did not contain HER-2/neu (FIG. 6).
[0099] Recombinant proteins of the extracellular and intracellular
domain portions of HER-2/neu were obtained. The extracellular
protein (110 kD) and intracellular protein (75 kD) were resolved on
a 7.5% SDS-PAG gel and incubated with patient sera as primary
antibody as previously described. The sera identified both proteins
proving that some patients have antibodies directed to both the
extracellular and intracellular domain of the HER-2/neu protein
(FIG. 7).
B. Seven Normal Individuals Showed No Evidence of Antibody to
HER-2/neu Protein
[0100] In studies to determine the extent to which detection of
antibody to HER-2/neu is specific for malignancy, sera from seven
normal individuals was obtained and analyzed in identical fashion
as described above. There was no evidence of antibodies directed
toward any HER-2/neu protein.
C. The Sera of Three Patients with Known HER-2/neu Positive Tumors
Contained Antibodies Against p185 and p105
[0101] Sera from breast cancer patients whose HER-2/neu tumor
status is known was collected and analyzed to determine the extent
to which antibody to HER-2/neu correlates with the presence of
HER-2/neu-positive tumors. Three patients with overexpression of
p185.sup.HER-2/neu protein in their primary tumor were analyzed.
Antibodies against p185 were detected in all three. The antibody
detected in our studies was IgG. Immunoglobulin class switch from
IgM to IgG or IgA require T cell help often directed against
different epitopes on the same protein molecule.
Example 4
Peptide Based Vaccines Elicit Immunity to HER-2/NEU
A. Materials and Methods
[0102] 1. Animals
[0103] Rats used in this study were Fischer strain 344 (CDF
(F-344)/CrIBR) (Charles River Laboratories, Portage Mich.). Animals
were maintained at the University of Washington Animal facilities
under specific pathogen free conditions and routinely used for
experimental studies between 3 and 4 months of age.
[0104] 2. Antigens
[0105] Nine peptides were constructed, derived from the amino acid
sequence of the rat neu protein. The peptides, 15-18 amino acids in
length, were highly homologous to the human HER-2/neu peptide
sequence. These peptides were chosen based on an increased
probability of interaction with human Class II MHC molecules. This
theoretical potential was evaluated by the use of a protein
sequence analysis package, TSites, that incorporates several
computer algorithms designed to distinguish potential sites for T
cell recognition (Feller and de la Cruz, Nature 349:720-721, 1991).
Several peptides identified from the rat sequence were predicted to
have potential for class II interaction with both human and murine
MHC. Nine peptides were chosen for immunization of the rats (Table
5). Eight of the nine were in areas of 100% homology with human
neu. The remaining peptide had greater than 80% homology with human
neu (Yamamoto et al., Nature 319:230-234, 1986). The peptides were
synthesized and purified by H. Zabrowski (University of Washington,
Seattle, Wash.), then dissolved in phosphate-buffered saline (PBS),
pH 7.4, to give 2 mg/ml stock solutions. Prior to aliquoting,
peptides were sterile filtered, then stored at -70.degree. C.
TABLE-US-00007 TABLE 5 Peptides from the Rat neu Protein for
Immunization Rat Protein Homology to Sequence Amino Acids Domain
Human neu p45-59 HLDMLRHLYQGCQVV ECD 100% (Seq. ID No. 30) p98-112
PLQRLRIVRGTQLFE ECD 100% (Seq. ID No. 31) p323-337 NQEVTAEDGTQRCEK
ECD 100% (Seq. ID No. 56) p332-349 TQRCEKCSKPCARVCYGL ECD 100%
(Seq. ID No. 60) p433-447 RIIRGRILHDGAYSL ECD 80% (Seq. ID No. 67)
p781-795 GVGSPYVSRLLGICL ICD 100% (Seq. ID No. 44) p788-802
SRLLGICLTSTVQLV ICD 100% (Seq. ID No. 45) p932-946 PAREIPDLLEKGERL
ICD 100% (Seq. ID No. 49) p1171-1185 TLERPKTLSPGKNGV ICD 100% (Seq.
ID No. 54) ECD = extracellular domain ICD = intracellular
domain
[0106] 3. Immunization
[0107] One group of rats was immunized with a mixture of
extracellular domain (ECD) peptides and one group with a mixture of
intracellular domain (ICD) peptides. The final group received
adjuvant alone. Peptides were administered at a final concentration
of 100 .mu.g each in a total volume of 200 .mu.l. The animals
underwent 3 immunizations each 14-16 days apart with either CFA or
IFA as adjuvant (Sigma ImmunoChemicals, St. Louis, Mo.). 16 days
after the third immunization sera was obtained for assessment of
immune response.
[0108] 4. Cell Lines
[0109] Two cell lines were used as a source of neu proteins. SKBR3,
a human breast cancer cell line that is a marked overexpressor of
HER-2/neu (American Type Culture Collection, Rockville, Md.), was
maintained in culture in 10% fetal bovine serum (FBS) (Gemini
Bioproducts, Inc., Calabasas, Calif.) and RPMI. DHFR-G8, an NIH/3T3
cell line cotransfected with cneu-p and pSV2-DHFR (American Type
Culture Collection, Rockville, Md.), was used as a source of
non-transforming rat neu protein (Bernards et al., Proc. Natl.
Acad. Sci. USA 84:6854-6858, 1987). This cell line was maintained
in 10% FBS and Dulbecco's modified Eagle's medium with 4.5 g/L
glucose. DHFR-G8 cells were passaged through the same medium
supplemented with 0.3 .mu.M methotrexate at every third passage to
maintain the neu transfectant.
[0110] 5. Preparation of Cell Lysates
[0111] Lysates of both SKBR3 and DHFR-G8 were prepared and used as
a source of protein for both ELISA and immunoprecipitation studies.
Briefly, a lysis buffer consisting of tris base, sodium chloride
and Triton-X (1%) pH 7.5 was prepared. Protease inhibitors were
added; aprotinin (1 .mu.g/ml), benzamidine (1 mM) and PMSF (1 mM).
1 ml of the lysis buffer was used to suspend 10.sup.7 cells. The
cells were vortexed for 15 seconds every 10 minutes for an hour
until disrupted. All procedures were performed on ice in a
4.degree. C. cold room. After disruption the cells were microfuged
at 4.degree. C. for 20 minutes. Supernatant was removed from cell
debris and stored in small aliquots at -70.degree. C. until used.
Presence of human and rat neu in the lysates was documented by
Western blot analysis.
[0112] 6. ELISA for Rat Antibody Responses
[0113] 96 well Immulon 4 plates (Baxter SP, Redmond, Wash.:
Dynatech Laboratories) were incubated overnight at 4.degree. C.
with an IgG2a murine monoclonal antibody directed against rat neu
(kindly provided by Dr. M. Green) at a concentration of 10 .mu.g
antibody per ml. After incubation, all wells were blocked with PBS
and 1% bovine serum albumin (BSA) (Sigma Chemical Co., St. Louis,
Mo.), 100 .mu.l/well for 4 hours at room temperature. The plate was
washed with PBS/0.5% Tween and protein was added. Rows of wells
were coated with alternating PBS/1% BSA and DHFR-G8 lysate
(10.sup.8 cells/20 ml PBS), 50 .mu.l/well, overnight at 4.degree.
C. After washing, the plate was incubated with rat sera at the
following dilutions: 1:25, 1:50, 1:100, 1:200. The sera was diluted
in PBS/1% BSA/1% FBS/25 .mu.g/ml mouse IgG/0.01% NaN.sub.3 and then
serially into PBS/1% BSA. 50 .mu.l of diluted sera was added/well
and incubated 1 hour at room temperature. Sheep anti-rat Ig
horseradish peroxidase (HRP) was added to the wells at a 1:7,500
dilution in PBS/1% BSA and incubated for 45 minutes at room
temperature (Amersham Co., Arlington Heights, Ill.). Isotype assays
were performed similarly with rabbit anti-rat IgG and sheep
anti-rat IgM HRP antibodies as the second step antibody at a
concentration of 1:5000 (Serotec Ltd., Oxford, England). Control
wells consisting of varying dilutions of c-neu-Ab-1, a rabbit
polyclonal antibody directed against the kinase portion of human
neu which also has reactivity to rat neu (Oncogene Science,
Uniondale, N.Y.), were used as a positive control. These wells
received a second step antibody of goat-anti rabbit HRP at a 1:5000
dilution (Amersham Co.). Following the final wash, TMB (Kirkegaard
and Perry Laboratories, Gaithersburg, Md.) developing reagent was
added. Color reaction was read at an optical density of 640 nm
until the positive control wells reached 0.3 OD. The reaction was
stopped with 1N HCl and the optical density was read at 450 nm. The
OD of each serum dilution was calculated as the OD of the neu
coated wells minus the OD of the PBS/1% BSA coated wells. A pool of
5 normal rat sera was run on each plate as a negative control.
[0114] 7. Immunoprecipitation
[0115] Experimental rat sera was used to immunoprecipitate human
neu from the SKBR3 cell line and rat neu from the DHFR-G8 cell
line. A commercially prepared IgG1 mouse monoclonal antibody,
c-neu-Ab-3, which cross reacts with both human and rat neu, was
used as the positive control antibody in the immunoprecipitation
(Oncogene Science). Sera from 5 pooled normal rats and 2 rats
immunized with adjuvant alone and no peptide antigens were used as
2 negative controls. 1 ml of DHFR-G8 or SKBR3 lysate was incubated
with 75 .mu.l of rat sera or 10 .mu.l (1 .mu.g) of neu specific
monoclonal antibody and 15 .mu.l of protein A+G (Oncogene Science).
The solution was rocked gently overnight at 4.degree. C. After this
incubation, the agarose was pelleted and washed twice in a tris
HCl/EDTA buffer (1M Tris HCl pH 7.5, 0.25 M EDTA, and 5M NaCl),
then twice in the same buffer with NP-40 added to a 0.5%
concentration. The immunoprecipitates were analyzed by Western blot
as described above using c-neu-Ab-1 (Oncogene Science) as the
primary antibody. This antibody is a neu specific polyclonal rabbit
antibody which cross reacts with both human and rat neu.
[0116] 8. ELISA for Peptide Epitope Analysis
[0117] 96 well Immulon 4 plates (Dynatech Laboratories) were
incubated overnight at 4.degree. C. with peptides at a
concentration of 10 .mu.g/well diluted in PBS alternating with rows
of PBS/1% BSA. After incubation, all wells were blocked with PBS/1%
BSA, 100 .mu.l/well for 4 hours at room temperature. The plate was
washed with PBS/0.5% Tween. After washing, the plate was incubated
with rat sera at the following dilutions: 1:50 and 1:100. The sera
was diluted in PBS/1% BSA/1% FBS/25 .mu.g/ml mouse IgG/0.01%
NaN.sub.3 and then serially into PBS/1% BSA. 50 .mu.l of diluted
sera was added/well and incubated 1 hour at room temperature. Sheep
anti-rat HRP was added to the wells at a 1:7,500 dilution in PBS/1%
BSA and incubated for 45 minutes at room temperature. Following the
final wash, the TMB developing reagent was added. Color reaction
was read at an optical density of 640 nm until the reading on the
most reactive well reached 0.3 OD. The reaction was stopped with 1N
HCl and the optical density was read at 450 nm. The OD of each
serum dilution was calculated as the OD of the peptide coated wells
minus the OD of the PBS/1% BSA coated wells. A pool of 5 normal rat
sera was run with each peptide at the same dilutions as the
experimental sera as a negative control.
[0118] 9. Western Blot Analysis for Rat Antibody Responses
[0119] Immunoprecipitates of SKBR3 and DHFR-G8 were used as a
source of human and rat neu proteins in the Western assays.
Recombinant human ECD and ICD (kindly provided by Drs. B. Groner
and N. Lydon) were used to evaluate antibody responses to the neu
domains. 7.5% polyacrylamide gels were electrophoresed in the
Pharmacia Phast System (Pharmacia LKB Biotechnology AB, Uppsala,
Sweden). After transfer to nitrocellulose (Hybond-C, Amersham Co.)
the neu proteins were identified by immunoblot in a similar manner.
All control blots were developed by using the IgG1 mouse monoclonal
primary antibody, c-neu-Ab-3 (Oncogene Science). This antibody
cross reacts with both rat and human neu. The primary antibody was
used in a 1:1000 dilution with tris-buffered saline/1% BSA/0.1%
Nonidet P-40. A polyclonal rabbit antimouse HRP-conjugated second
antibody (Amersham Co.) was used in a 1:10,000 dilution. The blot
was then developed using a chemiluminescent reaction (Amersham
ECL). Identically run experimental blots were analyzed with rat
sera as primary antibody. The sera were used in a 1:500 dilution
with tris-buffered saline/1% BSA/0.1% Nonidet P-40 in an overnight
incubation with the blot a 4.degree. C. Secondary antibody,
goat-anti rat HRP conjugate (Amersham Co.) was used at a 1:5000
dilution. The blots were developed with ECL detection reagents and
exposed to Hyperfilm- ECL (Amersham Co.). The film was developed
and examined for reaction to human and rat neu as well as the ICD
and ECD domains of the protein. Sera from 5 pooled normal rats and
2 rats immunized with adjuvant alone and no peptide antigens were
used as 2 negative controls.
[0120] 10. T Cell Proliferation Assays
[0121] For analysis of neu peptide specific responses: Fresh spleen
or lymph node cells were harvested by mechanical disruption and
passage through wire mesh and washed. 2.times.10.sup.5 spleen
cells/well and 1.times.10.sup.5 lymph node cells/well were plated
into 96-well round bottom microtiter plates (Corning, Corning,
N.Y.) with 6 replicates per experimental group. The media used
consisted of EHAA 120 (Biofluids) with L-glutamine,
penicillin/streptomycin, 2-mercaptoethanol, and 5% FBS. Cells were
incubated with 25 .mu.g/ml of the various peptides. The group
incubated with the peptide mix received 25 .mu.g of each of the
peptides. After 4 days, wells were pulsed with 1 .mu.Ci of
[.sup.3H]thymidine for 6-8 hours and counted. Data is expressed as
a stimulation index (SI) which is defined as the mean of the
experimental wells divided by the mean of the control wells (no
antigen). For analysis of neu protein specific responses: Spleen or
lymph node cells were cultured for 3 in vitro stimulations. At the
time of analysis 1.times.10.sup.5 cultured spleen or lymph node T
cells were plated into 96 well microtiter plates as described
above. Cells were incubated with 1 .mu.g/ml immunoaffinity column
purified rat neu (from DHFR-G8 cells as the source of rat neu).
After 4 days, wells were pulsed with 1 .mu.Ci of [.sup.3H]thymidine
for 6-8 hours and counted. Data is expressed as a stimulation index
which is defined as the mean of the experimental wells divided by
the mean of the control wells (no antigen).
[0122] 11. Rat T Cell Culture
[0123] Spleen and lymph nodes from immunized rats were harvested
into single cell suspensions. PBMC were isolated by Ficoll/Hypaque
density gradient centrifugation (Histopaque-1083, Sigma
Diagnostics, St. Louis, Mo.). Cells were washed and resuspended in
bulk culture of 3.times.10.sup.7 cells in 6 well plates. The media
used consisted of EHAA 120 (Biofluids) with L-glutamine,
penicillin/streptomycin, 2-mercaptoethanol, and 10% FBS. A mix of
the immunizing peptides were added directly to culture at a
concentration of 10 .mu.g/ml of each peptide. The cultures were
restimulated on the peptide mix every 14 days with syngeneic spleen
that had been preincubated with the peptide mix for 2 hours,
irradiated to 1000 rads, and then washed. Stimulator to effector
ratio was 1:1 in each culture. After the second week in culture,
media was supplemented with 50% Con A conditioned media. At the end
of 3 in vitro stimulations, cells were >98% CD3+.
B. Rats Immunized with Peptides Derived from the ICD Portion of Rat
neu Protein Develop Antibody Responses to neu Protein
[0124] Rats were immunized with mixtures of either 4 ICD peptides
or 5 ECD peptides. Following the third immunization, serum and T
cells from immunized rats were assessed for immunity to neu
peptides and protein. Initial experiments assessed rats immunized
with ICD peptides for antibody responses to whole neu protein.
Serum antibody responses were analyzed by ELISA (FIG. 8). The
results demonstrate that immunization to ICD peptides elicited
antibody to whole neu protein. Sera was analyzed at 1:25, 1:50,
1:100, and 1:200 dilution. Results at the 1:25 dilution are
depicted (FIG. 8). Neu specific antibody responses titered rapidly
and at a 1:200 dilution the experimental sera demonstrated the same
level of response as control. Isotype analysis revealed that the
antibody responses were predominantly IgG (data not shown).
C. Rats Immunized with Peptides Derived from the ECD Portion of Rat
Neu Protein Develop Antibody Responses to Neu Protein
[0125] Immunizations with ECD peptides were performed in an
identical fashion as with ICD peptides. ELISA performed on sera
from rats immunized with ECD peptides revealed the generation of
antibody responses to whole neu protein (FIG. 9). The responses
were equivalent to responses elicited by immunization with ICD
peptides. These responses were predominantly of the IgG subtype
(data not shown).
D. Epitope Analysis of ICD Antibody Responses Demonstrates Dominant
B Cell Epitopes as Well as "Determinant Spreading" Between
Domains
[0126] Mixtures of peptides had been used above for immunization.
To determine which peptides in the mixture were the predominant B
cell epitopes, sera from rats immunized with ICD peptides was
analyzed by ELISA for responses to individual peptides. Responses
to both ICD and ECD peptides were evaluated with the presumption
that responses to the ECD peptides would be non-existent. Results
(FIG. 10) revealed different responses in each rat. All rats had
marked antibody responses to the overlapping p781 and p788 ICD
peptides, although the relative levels of responses varied between
animals. Responses to p932 and p1171 were observed, but were
relatively weak. Surprisingly, rats immunized to the mixture of ICD
peptides displayed significant antibody responses to ECD peptides.
Responses in individual rats varied. Rat 2.2 had substantial
responses to all five ECD peptides evaluated. Rats 2.1 and 2.3 had
weaker responses. Thus, immunization to ICD peptides elicited
antibody responses to ICD peptides as well as "determinant
spreading" with the generation of antibody responses to the ECD
portion of the molecule. Rats immunized with adjuvant alone did not
develop T cell responses to any tested peptide.
E. Epitope Analysis of ECD Antibody Responses Demonstrates Dominant
B Cell Epitopes
[0127] Determination of the dominant B cell epitopes in ECD peptide
immunized animals was performed in an identical fashion. Again, the
relative responses to individual peptides differed between each
animal. Rats immunized with ECD peptides developed substantial
responses to p45, p332, and p433 and minimal responses to p98 and
p323 (FIG. 11). The dominant epitope was p45 in rats 1.1 and 1.3,
but was p433 in rat 1.2. As with immunization to ECD peptides,
determinant spreading was observed. All rats developed antibody to
p788 in the ICD and rats 1.1 and 1.2 responded to p1171. The
magnitude and extent of "determinant spreading" appeared to be less
in the animals immunized with the ECD peptides than those immunized
with the ICD peptides. However, only a limited number of potential
epitopes were examined.
F. Antibodies Elicited by Immunization to Either ICD or ECD
Peptides are Specific for and can Immunoprecipitate Both Rat Neu
Protein and Human HER-2/Neu Protein
[0128] The above experiments showed that immunization to neu
peptides could elicit antibody responses to whole rat protein and
peptides, as determined by ELISA. Verification of the antibody
responses to protein observed by ELISA was performed by assessing
the ability of immune sera to immunoprecipitate rat neu protein
from lysates of DHFRG-8, an NIH-3T3 cell line transfected with
non-transforming rat neu. Results showed that sera from rats
immunized with either ECD or ICD peptides could immunoprecipitate
rat neu (FIG. 12, Panel A).
[0129] The immunizing rat neu peptides were homologous with the
human HER-2/neu protein sequence. Thus, the anti-peptide antibodies
elicited should be reactive to both rat and human peptides. To
determine whether the antibodies elicited were also specific for
human HER-2/neu protein, experiments evaluated the ability of sera
from peptide immunized rats to immunoprecipitate HER-2/neu from
lysates of SKBR3, a human breast cancer cell line that
overexpresses HER-2/neu. Sera from all rats immunized with ICD or
ECD peptides could immunoprecipitate HER-2/neu protein while the
control sera did not (FIG. 12, Panel B).
G. B Cell Epitopes that are Cross Reactive Between Human and Rat
Neu are Present in Both Domains of the Protein
[0130] Antibody elicited by immunization to ICD and ECD peptides
immunoprecipitated both rat and human neu protein. To further
evaluate the protein domains recognized, sera from rats immunized
with ICD and ECD peptides was evaluated by Western analysis for
reactivity against human recombinant ECD and ICD as well as whole
human and rat neu immunoprecipitated protein. Sera from animals
immunized with either ICD or ECD peptides recognized both domains
and whole protein from both species (FIG. 13). Control animals had
no evidence of antibodies directed against either domain. These
results verify not only the phenomenon of "determinant spreading"
suggested in the peptide epitope analysis, but also demonstrate
human and rat cross reactive epitopes in both domains.
H. Immunization of Rats with ICD Peptides Elicits Neu
Peptide-Specific T Cell Responses
[0131] The above-detected antibody responses were IgG implying that
T cell help was present and operative in immunoglobulin class
switch. Spleen and lymph nodes cells were evaluated for
proliferative responses to the immunizing peptides. Proliferative T
cell responses to the immunizing peptides were observed, but the
relative responses between individual rats were varied (FIG. 14). A
stimulation index of >2 was arbitrarily chosen as the cut off of
significance. Rat 2.1 did not have any proliferative response
greater than SI of 2 to the mixture of immunizing ICD peptides or
to individual peptides. Rats 2.2 and 2.3 had SI>2 to the mixture
of ICD peptides with the dominant response to p1171 in both
rats.
I. Immunization of Rats with ICD Peptides Elicits Neu
Protein-Specific T Cell Responses
[0132] Peptide specific T cell lines were derived by repeated in
vitro stimulation of spleen cells from peptide immunized mice by a
mixture of the immunizing peptides. After 40 days the cultured
cells were greater than 98% CD3+. The cultured T cells from 2 of
the 3 immunized rats demonstrated substantial responses to protein
with Sls of 9 and 16 (FIG. 15). The SI from the third rat was
>2. No responses to control protein were observed.
J. Immunization of Rats with ECD Peptides Elicits Only Weak
Peptide-Specific T Cell Responses
[0133] A similar analysis was performed with T cells derived from
animals immunized with the ECD peptides. Unlike the responses
observed from the animals immunized with the mixture of ICD
peptides, animals immunized with ECD peptides exhibited only weak
proliferative responses to the mixture of ECD peptides as well as
to individual peptides (FIG. 16). Only one of three rats displayed
SI of 2.0 or greater to peptides.
K. Immunization of Rats with ECD Peptides Elicits Weak, but
Positive Responses to Neu Protein
[0134] Both splenic and lymph node T cells derived from ECD peptide
immunized rats were analyzed for responses to rat neu protein (FIG.
17). Splenic T cells exhibited low level responses, whereas
responses were greater for lymph node derived T cells.
Proliferative responses were not the same for all animals tested.
The maximum SI for spleen derived T cell lines was 2.1, whereas the
maximum SI for lymph node derived T cells was 3.
[0135] From the foregoing, it will be evident that, although
specific embodiments of the invention have been described herein
for purposes of illustration, various modifications may be made
without deviating from the spirit and scope of the invention.
Sequence CWU 1
1
7019PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 1His Leu Tyr Gln Gly Cys
Gln Val Val1 529PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 2Pro Leu Gln Pro Glu
Gln Leu Gln Val1 539PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 3Pro Leu
Thr Ser Ile Ile Ser Ala Val1 549PRTArtificial SequenceSynthesized
peptide fragment from p185(HER-2/neu) protein with an amino acid
motif appropriate for binding the class I MHC molecule HLA-A2.1
4Ile Leu Leu Val Val Val Leu Gly Val1 559PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 5Leu Leu Val Val Val Leu Gly Val Val1
569PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 6Arg Leu Leu Gln Glu Thr
Glu Leu Val1 579PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 7Cys Leu Thr Ser Thr
Val Gln Leu Val1 589PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 8Asp Leu
Ala Ala Arg Asn Val Leu Val1 599PRTArtificial SequenceSynthesized
peptide fragment from p185(HER-2/neu) protein with an amino acid
motif appropriate for binding the class I MHC molecule HLA-A2.1
9Val Leu Val Lys Ser Pro Asn His Val1 5109PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 10Thr Leu Ser Pro Gly Lys Asn Gly Val1
5119PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 11Val Leu Gly Val Val Phe
Gly Ile Leu1 5129PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 12Leu Ile Lys Arg Arg
Gln Gln Lys Ile1 5139PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 13Lys Ile
Pro Val Ala Ile Lys Val Leu1 5149PRTArtificial SequenceSynthesized
peptide fragment from p185(HER-2/neu) protein with an amino acid
motif appropriate for binding the class I MHC molecule HLA-A2.1
14Ile Leu Asp Glu Ala Tyr Val Met Ala1 5159PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 15Gln Leu Met Pro Tyr Gly Cys Leu Leu1
5169PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 16Gln Ile Ala Lys Gly Met
Ser Tyr Leu1 5179PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 17Leu Leu Asn Trp Cys
Met Gln Ile Ala1 5189PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 18Arg Leu
Val His Arg Asp Leu Ala Ala1 5199PRTArtificial SequenceSynthesized
peptide fragment from p185(HER-2/neu) protein with an amino acid
motif appropriate for binding the class I MHC molecule HLA-A2.1
19Asp Ile Asp Glu Thr Glu Tyr His Ala1 5209PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 20Asp Leu Leu Glu Lys Gly Glu Arg Leu1
5219PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 21Thr Ile Asp Val Tyr Met
Leu Met Val1 5229PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 22Met Ile Met Val Lys
Cys Trp Met Ile1 5239PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 23Asp Leu
Val Asp Ala Glu Glu Tyr Leu1 5249PRTArtificial SequenceSynthesized
peptide fragment from p185(HER-2/neu) protein with an amino acid
motif appropriate for binding the class I MHC molecule HLA-A2.1
24Gly Leu Glu Pro Ser Glu Glu Glu Ala1 5259PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 25Tyr Leu Thr Pro Gln Gly Gly Ala Ala1
5269PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class I MHC molecule HLA-A2.1 26Gln Leu Phe Glu Asp Asn
Tyr Ala Leu1 5279PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class I MHC molecule HLA-A2.1 27Lys Ile Phe Gly Ser
Leu Ala Phe Leu1 52811PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class I MHC molecule HLA-A2.1 28Ile Leu
Asp Glu Ala Tyr Val Met Ala Gly Val1 5 102910PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 29Val Met Ala Gly Val Gly Ser Pro Tyr Val1 5
103015PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class II MHC molecules 30His Leu Asp Met Leu Arg His
Leu Tyr Gln Gly Cys Gln Val Val1 5 10 153115PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 31Pro Leu Gln Arg Leu Arg Ile Val Arg Gly Thr Gln Leu Phe
Glu1 5 10 153215PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 32Leu Arg Ser Leu Thr Glu
Ile Leu Lys Gly Gly Val Leu Ile Gln1 5 10 153315PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 33Val Thr Tyr Asn Thr Asp Thr Phe Glu Ser Met Pro Asn Pro
Glu1 5 10 153415PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 34His Leu Arg Glu Val Arg
Ala Val Thr Ser Ala Asn Ile Gln Glu1 5 10 153515PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 35Val Arg Ala Val Thr Ser Ala Asn Ile Gln Glu Phe Ala Gly
Cys1 5 10 153615PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 36Asn Ile Gln Glu Phe Ala
Gly Cys Lys Lys Ile Phe Gly Ser Leu1 5 10 153715PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 37Gln Val Phe Glu Thr Leu Glu Glu Ile Thr Gly Tyr Leu Tyr
Ile1 5 10 153815PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 38Gln Glu Cys Val Glu Glu
Cys Arg Val Leu Gln Gly Leu Pro Arg1 5 10 153915PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 39Val Val Val Leu Gly Val Val Phe Gly Ile Leu Ile Lys Arg
Arg1 5 10 154015PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 40Lys Tyr Thr Met Arg Arg
Leu Leu Gln Glu Thr Glu Leu Val Glu1 5 10 154115PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 41Gly Ala Met Pro Asn Gln Ala Gln Met Arg Ile Leu Lys Glu
Thr1 5 10 154215PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 42Val Lys Val Leu Gly Ser
Gly Ala Phe Gly Thr Val Tyr Lys Gly1 5 10 154315PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 43Ser Pro Lys Ala Asn Lys Glu Ile Leu Asp Glu Ala Tyr Val
Met1 5 10 154415PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 44Gly Val Gly Ser Pro Tyr
Val Ser Arg Leu Leu Gly Ile Cys Leu1 5 10 154515PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 45Ser Arg Leu Leu Gly Ile Cys Leu Thr Ser Thr Val Gln Leu
Val1 5 10 154615PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 46Gly Ser Gln Asp Leu Leu
Asn Trp Cys Met Gln Ile Ala Lys Gly1 5 10 154715PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 47Val Lys Ile Thr Asp Phe Gly Leu Ala Arg Leu Leu Asp Ile
Asp1 5 10 154815PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 48Thr Val Trp Glu Leu Met
Thr Phe Gly Ala Lys Pro Tyr Asp Gly1 5 10 154915PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 49Pro Ala Arg Glu Ile Pro Asp Leu Leu Glu Lys Gly Glu Arg
Leu1 5 10 155015PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 50Arg Phe Arg Glu Leu Val
Ser Glu Phe Ser Arg Met Ala Arg Asp1 5 10 155115PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 51Glu Asp Asp Asp Met Gly Asp Leu Val Asp Ala Glu Glu Tyr
Leu1 5 10 155215PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 52Gly Met Gly Ala Ala Lys
Gly Leu Gln Ser Leu Pro Thr His Asp1 5 10 155315PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 53Thr Cys Ser Pro Gln Pro Glu Tyr Val Asn Gln Pro Asp Val
Arg1 5 10 155415PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 54Thr Leu Glu Arg Pro Lys
Thr Leu Ser Pro Gly Lys Asn Gly Val1 5 10 155515PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 55Gly Gly Ala Val Glu Asn Pro Glu Tyr Leu Thr Pro Gln Gly
Gly1 5 10 155615PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 56Asn Gln Glu Val Thr Ala
Glu Asp Gly Thr Gln Arg Cys Glu Lys1 5 10 155715PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 57Gln Val Ile Arg Gly Arg Ile Leu His Asn Gly Ala Tyr Ser
Leu1 5 10 155815PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 58Leu Gln Val Phe Glu Thr
Leu Glu Glu Ile Thr Gly Tyr Leu Tyr1 5 10 155915PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 59Ala Ser Pro Leu Thr Ser Ile Ile Ser Ala Val Val Gly Ile
Leu1 5 10 156018PRTArtificial SequenceSynthesized peptide fragment
from p185(HER-2/neu) protein with an amino acid motif appropriate
for binding the class II MHC molecules 60Thr Gln Arg Cys Glu Lys
Cys Ser Lys Pro Cys Ala Arg Val Cys Tyr1 5 10 15Gly
Leu6117PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class II MHC molecules 61Arg Leu Arg Ile Val Arg Gly
Thr Gln Leu Phe Glu Asp Asn Tyr Ala1 5 10 15Leu6216PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 62Lys Ile Phe Gly Ser Leu Ala Phe Leu Pro Glu Ser Phe Asp
Gly Asp1 5 10 156316PRTArtificial SequenceSynthesized peptide
fragment from p185(HER-2/neu) protein with an amino acid motif
appropriate for binding the class II MHC molecules 63Arg Arg Leu
Leu Gln Glu Thr Glu Leu Val Glu Pro Leu Thr Pro Ser1 5 10
156414PRTArtificial SequenceSynthesized peptide fragment from
p185(HER-2/neu) protein with an amino acid motif appropriate for
binding the class II MHC molecules 64Glu Leu Val Ser Glu Phe Ser
Arg Met Ala Arg Asp Pro Gln1 5 106514PRTArtificial
SequenceSynthesized peptide fragment from p185(c-neu) protein with
an amino acid motif appropriate for binding the class II MHC
molecules 65Thr Ala Glu Asn Pro Glu Tyr Leu Gly Leu Asp Val Pro
Val1 5 106614PRTArtificial SequenceSynthesized peptide fragment
from p185(c-neu) protein with an amino acid motif appropriate for
binding the class II MHC molecules 66Leu Ala Arg Leu Leu Asp Ile
Asp Glu Thr Glu Tyr Ala Asp1 5 106715PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class II MHC
molecules 67Arg Ile Ile Arg Gly Arg Ile Leu His Asp Gly Ala Tyr Ser
Leu1 5 10 15681255PRTHomo sapiens 68Met Glu Leu Ala Ala Leu Cys Arg
Trp Gly Leu Leu Leu Ala Leu Leu1 5
10 15Pro Pro Gly Ala Ala Ser Thr Gln Val Cys Thr Gly Thr Asp Met
Lys 20 25 30Leu Arg Leu Pro Ala Ser Pro Glu Thr His Leu Asp Met Leu
Arg His 35 40 45Leu Tyr Gln Gly Cys Gln Val Val Gln Gly Asn Leu Glu
Leu Thr Tyr 50 55 60Leu Pro Thr Asn Ala Ser Leu Ser Phe Leu Gln Asp
Ile Gln Glu Val65 70 75 80Gln Gly Tyr Val Leu Ile Ala His Asn Gln
Val Arg Gln Val Pro Leu 85 90 95Gln Arg Leu Arg Ile Val Arg Gly Thr
Gln Leu Phe Glu Asp Asn Tyr 100 105 110Ala Leu Ala Val Leu Asp Asn
Gly Asp Pro Leu Asn Asn Thr Thr Pro 115 120 125Val Thr Gly Ala Ser
Pro Gly Gly Leu Arg Glu Leu Gln Leu Arg Ser 130 135 140Leu Thr Glu
Ile Leu Lys Gly Gly Val Leu Ile Gln Arg Asn Pro Gln145 150 155
160Leu Cys Tyr Gln Asp Thr Ile Leu Trp Lys Asp Ile Phe His Lys Asn
165 170 175Asn Gln Leu Ala Leu Thr Leu Ile Asp Thr Asn Arg Ser Arg
Ala Cys 180 185 190His Pro Cys Ser Pro Met Cys Lys Gly Ser Arg Cys
Trp Gly Glu Ser 195 200 205Ser Glu Asp Cys Gln Ser Leu Thr Arg Thr
Val Cys Ala Gly Gly Cys 210 215 220Ala Arg Cys Lys Gly Pro Leu Pro
Thr Asp Cys Cys His Glu Gln Cys225 230 235 240Ala Ala Gly Cys Thr
Gly Pro Lys His Ser Asp Cys Leu Ala Cys Leu 245 250 255His Phe Asn
His Ser Gly Ile Cys Glu Leu His Cys Pro Ala Leu Val 260 265 270Thr
Tyr Asn Thr Asp Thr Phe Glu Ser Met Pro Asn Pro Glu Gly Arg 275 280
285Tyr Thr Phe Gly Ala Ser Cys Val Thr Ala Cys Pro Tyr Asn Tyr Leu
290 295 300Ser Thr Asp Val Gly Ser Cys Thr Leu Val Cys Pro Leu His
Asn Gln305 310 315 320Glu Val Thr Ala Glu Asp Gly Thr Gln Arg Cys
Glu Lys Cys Ser Lys 325 330 335Pro Cys Ala Arg Val Cys Tyr Gly Leu
Gly Met Glu His Leu Arg Glu 340 345 350Val Arg Ala Val Thr Ser Ala
Asn Ile Gln Glu Phe Ala Gly Cys Lys 355 360 365Lys Ile Phe Gly Ser
Leu Ala Phe Leu Pro Glu Ser Phe Asp Gly Asp 370 375 380Pro Ala Ser
Asn Thr Ala Pro Leu Gln Pro Glu Gln Leu Gln Val Phe385 390 395
400Glu Thr Leu Glu Glu Ile Thr Gly Tyr Leu Tyr Ile Ser Ala Trp Pro
405 410 415Asp Ser Leu Pro Asp Leu Ser Val Phe Gln Asn Leu Gln Val
Ile Arg 420 425 430Gly Arg Ile Leu His Asn Gly Ala Tyr Ser Leu Thr
Leu Gln Gly Leu 435 440 445Gly Ile Ser Trp Leu Gly Leu Arg Ser Leu
Arg Glu Leu Gly Ser Gly 450 455 460Leu Ala Leu Ile His His Asn Thr
His Leu Cys Phe Val His Thr Val465 470 475 480Pro Trp Asp Gln Leu
Phe Arg Asn Pro His Gln Ala Leu Leu His Thr 485 490 495Ala Asn Arg
Pro Glu Asp Glu Cys Val Gly Glu Gly Leu Ala Cys His 500 505 510Gln
Leu Cys Ala Arg Cys His Cys Trp Gly Pro Gly Pro Thr Gln Cys 515 520
525Val Asn Cys Ser Gln Phe Leu Arg Gly Gln Glu Cys Val Glu Glu Cys
530 535 540Arg Val Leu Gln Gly Leu Pro Arg Glu Tyr Val Asn Ala Arg
His Cys545 550 555 560Leu Pro Cys His Pro Glu Cys Gln Pro Gln Asn
Gly Ser Val Thr Cys 565 570 575Phe Gly Pro Glu Ala Asp Gln Cys Val
Ala Cys Ala His Tyr Lys Asp 580 585 590Pro Pro Phe Cys Val Ala Arg
Cys Pro Ser Gly Val Lys Pro Asp Leu 595 600 605Ser Tyr Met Pro Ile
Trp Lys Phe Pro Asp Glu Glu Gly Ala Cys Gln 610 615 620Pro Cys Pro
Ile Asn Cys Thr His Ser Cys Val Asp Leu Asp Asp Lys625 630 635
640Gly Cys Pro Ala Glu Gln Arg Ala Ser Pro Leu Thr Ser Ile Ile Ser
645 650 655Ala Val Val Gly Ile Leu Leu Val Val Val Leu Gly Val Val
Phe Gly 660 665 670Ile Leu Ile Lys Arg Arg Gln Gln Lys Ile Arg Lys
Tyr Thr Met Arg 675 680 685Arg Leu Leu Gln Glu Thr Glu Leu Val Glu
Pro Leu Thr Pro Ser Gly 690 695 700Ala Met Pro Asn Gln Ala Gln Met
Arg Ile Leu Lys Glu Thr Glu Leu705 710 715 720Arg Lys Val Lys Val
Leu Gly Ser Gly Ala Phe Gly Thr Val Tyr Lys 725 730 735Gly Ile Trp
Ile Pro Asp Gly Glu Asn Val Lys Ile Pro Val Ala Ile 740 745 750Lys
Val Leu Arg Glu Asn Thr Ser Pro Lys Ala Asn Lys Glu Ile Leu 755 760
765Asp Glu Ala Tyr Val Met Ala Gly Val Gly Ser Pro Tyr Val Ser Arg
770 775 780Leu Leu Gly Ile Cys Leu Thr Ser Thr Val Gln Leu Val Thr
Gln Leu785 790 795 800Met Pro Tyr Gly Cys Leu Leu Asp His Val Arg
Glu Asn Arg Gly Arg 805 810 815Leu Gly Ser Gln Asp Leu Leu Asn Trp
Cys Met Gln Ile Ala Lys Gly 820 825 830Met Ser Tyr Leu Glu Asp Val
Arg Leu Val His Arg Asp Leu Ala Ala 835 840 845Arg Asn Val Leu Val
Lys Ser Pro Asn His Val Lys Ile Thr Asp Phe 850 855 860Gly Leu Ala
Arg Leu Leu Asp Ile Asp Glu Thr Glu Tyr His Ala Asp865 870 875
880Gly Gly Lys Val Pro Ile Lys Trp Met Ala Leu Glu Ser Ile Leu Arg
885 890 895Arg Arg Phe Thr His Gln Ser Asp Val Trp Ser Tyr Gly Val
Thr Val 900 905 910Trp Glu Leu Met Thr Phe Gly Ala Lys Pro Tyr Asp
Gly Ile Pro Ala 915 920 925Arg Glu Ile Pro Asp Leu Leu Glu Lys Gly
Glu Arg Leu Pro Gln Pro 930 935 940Pro Ile Cys Thr Ile Asp Val Tyr
Met Ile Met Val Lys Cys Trp Met945 950 955 960Ile Asp Ser Glu Cys
Arg Pro Arg Phe Arg Glu Leu Val Ser Glu Phe 965 970 975Ser Arg Met
Ala Arg Asp Pro Gln Arg Phe Val Val Ile Gln Asn Glu 980 985 990Asp
Leu Gly Pro Ala Ser Pro Leu Asp Ser Thr Phe Tyr Arg Ser Leu 995
1000 1005Leu Glu Asp Asp Asp Met Gly Asp Leu Val Asp Ala Glu Glu
Tyr Leu 1010 1015 1020Val Pro Gln Gln Gly Phe Phe Cys Pro Asp Pro
Ala Pro Gly Ala Gly1025 1030 1035 1040Gly Met Val His His Arg His
Arg Ser Ser Ser Thr Arg Ser Gly Gly 1045 1050 1055Gly Asp Leu Thr
Leu Gly Leu Glu Pro Ser Glu Glu Glu Ala Pro Arg 1060 1065 1070Ser
Pro Leu Ala Pro Ser Glu Gly Ala Gly Ser Asp Val Phe Asp Gly 1075
1080 1085Asp Leu Gly Met Gly Ala Ala Lys Gly Leu Gln Ser Leu Pro
Thr His 1090 1095 1100Asp Pro Ser Pro Leu Gln Arg Tyr Ser Glu Asp
Pro Thr Val Pro Leu1105 1110 1115 1120Pro Ser Glu Thr Asp Gly Tyr
Val Ala Pro Leu Thr Cys Ser Pro Gln 1125 1130 1135Pro Glu Tyr Val
Asn Gln Pro Asp Val Arg Pro Gln Pro Pro Ser Pro 1140 1145 1150Arg
Glu Gly Pro Leu Pro Ala Ala Arg Pro Ala Gly Ala Thr Leu Glu 1155
1160 1165Arg Pro Lys Thr Leu Ser Pro Gly Lys Asn Gly Val Val Lys
Asp Val 1170 1175 1180Phe Ala Phe Gly Gly Ala Val Glu Asn Pro Glu
Tyr Leu Thr Pro Gln1185 1190 1195 1200Gly Gly Ala Ala Pro Gln Pro
His Pro Pro Pro Ala Phe Ser Pro Ala 1205 1210 1215Phe Asp Asn Leu
Tyr Tyr Trp Asp Gln Asp Pro Pro Glu Arg Gly Ala 1220 1225 1230Pro
Pro Ser Thr Phe Lys Gly Thr Pro Thr Ala Glu Asn Pro Glu Tyr 1235
1240 1245Leu Gly Leu Asp Val Pro Val 1250 125569580PRTHomo sapiens
69Lys Arg Arg Gln Gln Lys Ile Arg Lys Tyr Thr Met Arg Arg Leu Leu1
5 10 15Gln Glu Thr Glu Leu Val Glu Pro Leu Thr Pro Ser Gly Ala Met
Pro 20 25 30Asn Gln Ala Gln Met Arg Ile Leu Lys Glu Thr Glu Leu Arg
Lys Val 35 40 45Lys Val Leu Gly Ser Gly Ala Phe Gly Thr Val Tyr Lys
Gly Ile Trp 50 55 60Ile Pro Asp Gly Glu Asn Val Lys Ile Pro Val Ala
Ile Lys Val Leu65 70 75 80Arg Glu Asn Thr Ser Pro Lys Ala Asn Lys
Glu Ile Leu Asp Glu Ala 85 90 95Tyr Val Met Ala Gly Val Gly Ser Pro
Tyr Val Ser Arg Leu Leu Gly 100 105 110Ile Cys Leu Thr Ser Thr Val
Gln Leu Val Thr Gln Leu Met Pro Tyr 115 120 125Gly Cys Leu Leu Asp
His Val Arg Glu Asn Arg Gly Arg Leu Gly Ser 130 135 140Gln Asp Leu
Leu Asn Trp Cys Met Gln Ile Ala Lys Gly Met Ser Tyr145 150 155
160Leu Glu Asp Val Arg Leu Val His Arg Asp Leu Ala Ala Arg Asn Val
165 170 175Leu Val Lys Ser Pro Asn His Val Lys Ile Thr Asp Phe Gly
Leu Ala 180 185 190Arg Leu Leu Asp Ile Asp Glu Thr Glu Tyr His Ala
Asp Gly Gly Lys 195 200 205Val Pro Ile Lys Trp Met Ala Leu Glu Ser
Ile Leu Arg Arg Arg Phe 210 215 220Thr His Gln Ser Asp Val Trp Ser
Tyr Gly Val Thr Val Trp Glu Leu225 230 235 240Met Thr Phe Gly Ala
Lys Pro Tyr Asp Gly Ile Pro Ala Arg Glu Ile 245 250 255Pro Asp Leu
Leu Glu Lys Gly Glu Arg Leu Pro Gln Pro Pro Ile Cys 260 265 270Thr
Ile Asp Val Tyr Met Ile Met Val Lys Cys Trp Met Ile Asp Ser 275 280
285Glu Cys Arg Pro Arg Phe Arg Glu Leu Val Ser Glu Phe Ser Arg Met
290 295 300Ala Arg Asp Pro Gln Arg Phe Val Val Ile Gln Asn Glu Asp
Leu Gly305 310 315 320Pro Ala Ser Pro Leu Asp Ser Thr Phe Tyr Arg
Ser Leu Leu Glu Asp 325 330 335Asp Asp Met Gly Asp Leu Val Asp Ala
Glu Glu Tyr Leu Val Pro Gln 340 345 350Gln Gly Phe Phe Cys Pro Asp
Pro Ala Pro Gly Ala Gly Gly Met Val 355 360 365His His Arg His Arg
Ser Ser Ser Thr Arg Ser Gly Gly Gly Asp Leu 370 375 380Thr Leu Gly
Leu Glu Pro Ser Glu Glu Glu Ala Pro Arg Ser Pro Leu385 390 395
400Ala Pro Ser Glu Gly Ala Gly Ser Asp Val Phe Asp Gly Asp Leu Gly
405 410 415Met Gly Ala Ala Lys Gly Leu Gln Ser Leu Pro Thr His Asp
Pro Ser 420 425 430Pro Leu Gln Arg Tyr Ser Glu Asp Pro Thr Val Pro
Leu Pro Ser Glu 435 440 445Thr Asp Gly Tyr Val Ala Pro Leu Thr Cys
Ser Pro Gln Pro Glu Tyr 450 455 460Val Asn Gln Pro Asp Val Arg Pro
Gln Pro Pro Ser Pro Arg Glu Gly465 470 475 480Pro Leu Pro Ala Ala
Arg Pro Ala Gly Ala Thr Leu Glu Arg Pro Lys 485 490 495Thr Leu Ser
Pro Gly Lys Asn Gly Val Val Lys Asp Val Phe Ala Phe 500 505 510Gly
Gly Ala Val Glu Asn Pro Glu Tyr Leu Thr Pro Gln Gly Gly Ala 515 520
525Ala Pro Gln Pro His Pro Pro Pro Ala Phe Ser Pro Ala Phe Asp Asn
530 535 540Leu Tyr Tyr Trp Asp Gln Asp Pro Pro Glu Arg Gly Ala Pro
Pro Ser545 550 555 560Thr Phe Lys Gly Thr Pro Thr Ala Glu Asn Pro
Glu Tyr Leu Gly Leu 565 570 575Asp Val Pro Val 580709PRTArtificial
SequenceSynthesized peptide fragment from p185(HER-2/neu) protein
with an amino acid motif appropriate for binding the class I MHC
molecule HLA-A2.1 70Ile Ile Ser Ala Val Val Gly Ile Leu1 5
* * * * *