WO2016125017A1 - Anti-garp protein and uses thereof - Google Patents

Anti-garp protein and uses thereof Download PDF

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Publication number
WO2016125017A1
WO2016125017A1 PCT/IB2016/000182 IB2016000182W WO2016125017A1 WO 2016125017 A1 WO2016125017 A1 WO 2016125017A1 IB 2016000182 W IB2016000182 W IB 2016000182W WO 2016125017 A1 WO2016125017 A1 WO 2016125017A1
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tgf
seq
antibody
garp
human
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PCT/IB2016/000182
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French (fr)
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Michael Saunders
Pierre Coulie
Sophie Lucas
Gitte DE BOECK
Sebastian VAN DE WONING
Hans De Haard
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Universite Catholique De Louvain
Argen-X Nv
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Priority to EP16710325.8A priority Critical patent/EP3253796A1/en
Publication of WO2016125017A1 publication Critical patent/WO2016125017A1/en

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    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/22—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against growth factors ; against growth regulators
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P37/00—Drugs for immunological or allergic disorders
    • A61P37/02—Immunomodulators
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/28—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
    • C07K16/2863—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants against receptors for growth factors, growth regulators
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00—Medicinal preparations containing antigens or antibodies
    • A61K2039/505—Medicinal preparations containing antigens or antibodies comprising antibodies
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/22—Immunoglobulins specific features characterized by taxonomic origin from camelids, e.g. camel, llama or dromedary
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/30—Immunoglobulins specific features characterized by aspects of specificity or valency
    • C07K2317/32—Immunoglobulins specific features characterized by aspects of specificity or valency specific for a neo-epitope on a complex, e.g. antibody-antigen or ligand-receptor
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/30—Immunoglobulins specific features characterized by aspects of specificity or valency
    • C07K2317/33—Crossreactivity, e.g. for species or epitope, or lack of said crossreactivity
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/30—Immunoglobulins specific features characterized by aspects of specificity or valency
    • C07K2317/34—Identification of a linear epitope shorter than 20 amino acid residues or of a conformational epitope defined by amino acid residues
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
    • C07K2317/55—Fab or Fab'
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
    • C07K2317/76—Antagonist effect on antigen, e.g. neutralization or inhibition of binding
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/90—Immunoglobulins specific features characterized by (pharmaco)kinetic aspects or by stability of the immunoglobulin
    • C07K2317/92—Affinity (KD), association rate (Ka), dissociation rate (Kd) or EC50 value

Definitions

  • the present invention relates to human anti-GARP protein that inhibits TGF- ⁇ signaling.
  • the present invention also relates to the treatment of immune disorders and diseases such as cancer. BACKGROUND OF INVENTION
  • Tregs are a subset of CD4+ T lymphocytes specialized in the inhibition of immune responses. Insufficient Treg function results in autoimmune pathology, while excessive Treg function may inhibit anti-tumor immune responses in cancer patients. The exact mechanisms by which Tregs inhibit immune responses are not fully understood. Due to their immunosuppressive functions, Tregs represent potential inhibitors of spontaneous or vaccine-induced anti-tumor immune responses. In murine models, the depletion of Tregs can improve immune responses against experimental tumors (Colombo et al. Nat. Rev. Cancer 2007, 7:880-887). Thus, targeting Tregs in humans could improve the efficacy of immunotherapy against cancer.
  • TGF- ⁇ active TGF- ⁇ is produced by human Tregs, but not other types of human T lymphocytes (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882), TGF- ⁇ could be a target of interest.
  • FSGS focal segmental glomerulosclerosis
  • IPF idiopathic pulmonary fibrosis
  • RCC renal cell carcinoma
  • One object of the invention is to provide a new strategy for improving cancer treatment by targeting Tregs via their production of TGF- ⁇ .
  • TGF- ⁇ is tightly regulated by a multi-step process.
  • the precursor pro-TGF- ⁇ 1 homodimerizes prior to cleavage by pro- protein convertase FURI .
  • the resulting product is called latent TGF- ⁇ , in which the C-terminal fragment, or mature TGF-Bl, remains non-covalently bound to the N- terminal fragment known as the Latency Associated Peptide, or LAP.
  • LAP Latency Associated Peptide
  • This latent complex is inactive because LAP prev ents mature TGF-131 from binding to its receptor.
  • the inventors show that latent TGF-B is shown to bind to the surface of Tregs through the transmembrane protein GARP (glycoprotein A repetitions predominant).
  • the present invention therefore provides a new strategy for targeting Treg based on an anti-GARP protein inhibiting TGF-B signaling.
  • One object of the invention is a protein binding to Glycoprotein A repetitions predominant (G ARP) in the presence of TGF-B.
  • G ARP Glycoprotein A repetitions predominant
  • said protein binds to GARP only in the presence of TGF-B.
  • said protein binds to GARP when GARP is complexed to TGF-B.
  • said protein binds to a complex of G ARP and TGF-B.
  • said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi-specific antibody, a diabody, a triabody, a tetrabody.
  • said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
  • said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
  • Another object of the inv ention is a protein as described here above or a protein binding GARP and inhibiting TGF-B signaling.
  • said protein is an antibody or antigen binding fragment thereof that binds to a conformational epitope comprising one or more amino acids of G ARP or an epitope of G ARP modified as a result of G ARP being complexed with latent TGF-B.
  • said antibody or antigen binding fragment thereof further binds one or more amino acids of latent TGF- ⁇ .
  • said antibody or antigen binding fragment thereof binds an epitope comprising one or more residues from residues 101 to 14 1 of GARP as set forth in SEQ ID NO: 1 .
  • Another object of the invention is a protein having the variable region of the heavy chain comprising at least one of the following CDRs:
  • V H-CDR l GFSLT GYGIN (SEQ ID NO: 2) or GYGI N (SEQ ID NO: 52);
  • VH-CDR3 D NYYDYDGAMDY (SEQ ID NO: 4),
  • variable region of the light chain comprising at least one of the following CDRs:
  • V L-CDRl KASDHIKNWLA SEQ ID NO: 5
  • VL-CDR2 GATSLEA ( SEQ ID NO: 6);
  • VL-CDR3 QQYWSTPWT (SEQ ID NO: 7),
  • variable region of the heavy chain comprises at least one of the following CDRs:
  • V H-CDR l SYYID SEQ ID NO: 13
  • VH-CDR2 RIDPEDGGTKYAQKFQG (SEQ ID NO: 14);
  • V H-CDR3 or NEWETVVVGDLMYEYEY SEQ ID NO: 15
  • variable region of the light chain comprises at least one of the following CDRs:
  • VL-CDRl QASQX, I X 2 S X 3 LA ( SEQ ID NO: 16), wherein X, is S or T, X 2 is S
  • V L-CDR2 X 1 X 2 SX 3 X 4 X 5 T ( SEQ ID NO: 17), wherein X, is G or R; X 2 is A or
  • variable region of the heavy chain comprises at least one of the following CDRs:
  • VH-CDR1 GFSLTGYGIN (SEQ ID NO: 2) or GYGIN (SEQ ID NO: 52);
  • VH-CDR2 MIWSDGSTDYNSVXTS (SEQ ID NO: 3);
  • VH-CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4),
  • variable region of the light chain comprises at least one of the following
  • VL-CDR1 KASDHIKNWLA (SEQ ID NO: 5);
  • VL-CDR2 GATSLEA (SEQ ID NO: 6);
  • VL-CDR3 QQYWSTPWT (SEQ ID NO: 7),
  • variable region of the heavy chain comprises at least one of the following CDRs:
  • VH-CDR2 RIDPEDGGTKYAQKFQG (SEQ ID NO: 14);
  • VH-CDR3 or NEWETVVVGDLMYEYEY (SEQ ID NO: 15);
  • variable region of the light chain comprises at least one of the following
  • V L-CDRl QASQXjI X 2 S X 3 LA (SEQ ID NO: 16), wherein X, is S or T, X 2 is
  • VL-CDR2 XiX 2 SX 3 X 4 X 5 T (SEQ ID NO: 17), wherein X, is G or R; X 2 is A or T; X is R or I; X 4 is L or P; X 5 is Q or K; VL-CDR3: QQYX 1 SX 2 PX 3 T, wherein Xi is D, A, Y or V; X 2 is A, L or V; X 3 is V or P (SEQ ID NO: 18);
  • variable region of the heavy chain comprises the following CDRs: GFSLTGYGIN (SEQ ID NO: 2), MIWSDGSTDYNSVLTS (SEQ ID NO: 3), DRNYYDYDGAMDY (SEQ ID NO: 4) and the variable region of the light chain comprises the following CDRs: KASDHIKNWLA (SEQ ID NO: 5), GATS LEA (SEQ ID NO: 6), QQYWSTPWT (SEQ ID NO: 7) or any CDR having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 2-7; or the variable region of the heavy chain comprises the following CDRs: GYGIN (SEQ ID NO: 52), MIWSDGSTDYNSVLTS (SEQ ID NO: 3), DRNYYDYDGAMDY (SEQ ID NO: 4) and the variable region of the light chain comprises the following CDRs: KASDHIKNWLA (SEQ ID NO: 2), MIWSDGSTDYNSVLTS (SEQ ID NO: 3), DRNYY
  • amino acid sequence of the heavy chain variable region is SEQ ID NO: 8 or SEQ ID NO: 50 and the amino acid sequence of the light chain variable region is SEQ ID NO: 9 or SEQ ID NO: 51, or the amino acid sequence of the heavy chain variable region is SEQ ID NO: 34 and the amino acid sequence of the light chain variable region is one of SEQ ID NO: 35-39 or any sequence having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 8-9, 50-51 or 34- 39.
  • Another object of the invention is a protein as defined here above binding to an epitope on the polypeptide having the amino acid sequence SEQ ID NO: 1 recognized by an antibody comprising a heavy chain variable region as set forth in SEQ ID NO: 8 or in SEQ ID NO: 50 and a light chain variable region as set forth in SEQ ID NO: 9 or in SEQ ID NO: 51, or by an antibody comprising a heavy chain variable region as set forth in SEQ ID NO: 34 and one of the light chain variable region as set forth in SEQ ID NO: 35-39.
  • Another object of the invention is an antibody or antigen binding fragment produced by a hybridoma registered under the accession number LMBP 10246CB on May 30, 2013.
  • Another object of the invention is a polynucleotide sequence encoding the antibody or antigen binding fragment as described here above.
  • Another object of the invention is an expression vector comprising the polynucleotide according to claim as described here above.
  • Another object of the invention is a hybridoma cell line producing an antibody against GARP registered under the accession number LMBP I 0246CB on May 30, 2013.
  • Another object of the invention is a pharmaceutical composition comprising the protein as described here above and a pharmaceutically acceptable excipient.
  • Another object of the invention is a pharmaceutical composition as described here above for treating a TGF- ⁇ related disorder in a subject in need thereof.
  • the TGF-13 related disorder is selected from the group consisting of inflammatory diseases, chronic infection, cancer, fibrosis, cardiovascular diseases, cerebrovascular disease (e.g. ischemic stroke), and neurodegenerative diseases.
  • the pharmaceutical composition as described here above is to be administered in combination with another treatment for cancer or another immunotherapeiitic agent such as a tumor vaccine or an immunostimulatory antibody .
  • the pharmaceutical composition as described here above is to be administered as an immunostimulatory antibody for treatment of cancer patients,
  • M HGARP8 inhibits active TGF- ⁇ production by a human Treg clone.
  • Clone Treg Al was stimulated during 24 hours with >CD3/CD28 antibodies, alone or in the presence of the indicated anti-hGARP mAbs (20 iig/ ' ml ).
  • A Cell ly sates were analyzed by WB with anti-pSMAD2 and anti-B-ACTIN antibodies.
  • B Quantification of ECL signals from WB shown in A.
  • FIG. 3 Regions in the hGARP protein required for binding by anti-hGARP antibodies.
  • Murine BW5147 T cells expressing the HA-tagged proteins schematized on the left were stained with anti-hGARP (MHGARP 1 to 9, as indicated on top of the figure) or anti-HA antibodies, and analyzed by flow cytometry. Histograms are gated on live cells. Based on the FACS results, regions required for binding by the various MHGARP mAbs were identified and are indicated by horizontal bars above the representations of the H A-tagged chim eras.
  • the HA-tagged forms of hGARP tested here comprised aa 20-662 of hG ARP (wild type, WT), or aa 20-662 of hGARP in which groups of 3 amino-acids located in region 10 1 - 14 1 were replaced by the amino-acids found in the corresponding region of mGARP (Mut I, Mut II and Mut 111 ).
  • Amino-acid sequences of region 10 1 - 14 1 of hGARP -WT, -Mut I, -Mut II, -Mut III and mGARP are indicated on the left.
  • Amino-acids that differ between human and mouse GARP are highlighted by grey vertical boxes, and amino-acids mutated in Mut I, Mut II and Mut 111 are indicated by black horizontal boxes.
  • MHGARP8 inhibits Treg function in vivo.
  • the indicated groups of NSG mice received i.v. injections of human PBMCs, in combination or not with human Tregs.
  • Mice from groups III and IV were treated with the MHGARP8 antibody, injected i.p. once a week, starting on day - 1.
  • Objective signs of GvHD development in the recipient mice were monitored bi-weekly.
  • a GvHD score was established based on weight loss (0: ⁇ 10%; 1 : 10%-20%; 2: >20%; 3 : >30%), anemia (0: red or pink tail; 1 : white tail), posture (0: normal; 1 : hump), general activity (0: normal; 1 : limited), hair loss (0: no hair loss; 1 : hair loss) and icterus (0: white or red tail; 1 : yellow tail ).
  • Maximum disease severity or death corresponded to a score of 7.
  • A Experiment 1. Values represent mean scores.
  • FIG. 7 New anti-hGARP niAbs.
  • A Schematic representation of the experimental strategies used to derive anti-hGARP mAbs.
  • B Flow cytometry analyses of clone Th A2 (human CD4+ Th cells which do not express hGARP), or Th.A2 cells transduced with hGARP, after staining with biotinylated MHG- 1 to - 14 mAbs and streptavidin coupled to PE (SA-PE), with LHG- 1 to -17 mAbs and a secondary anti-hlgGl antibody coupled to PE, or with a commercially available mouse anti-hGARP m Ab (clone Plato- 1) and a secondary anti-mIgG2b antibody coupled to AF647.
  • SA-PE biotinylated MHG- 1 to - 14 mAbs and streptavidin coupled to PE
  • SA-PE biotinylated MHG- 1 to - 14 mAbs and streptavidin
  • FIG. 1 shows immune responses from immunized llamas.
  • A shows immune responses from DNA immunized llamas.
  • B shows immune responses from llamas immunized with BW cells expressing hGARP/hTGFp.
  • Figure 9 Cross-reactivity to cynomolgus GARP-TG Fp measured on cells by FACS. 293 E cells were transfected with human / cyno GARP and human / cyno TGFB. LHG- 10-D and the affinity optimized variants are cross-reactive with cynomolgus GARP-TGFB. Figure 10. Sequences of LHG- 10 antibodies and its shuffle variants.
  • M HGA RP8 and LHG- 10 inhibit production of active TGF- ⁇ by human Tregs.
  • human CD4+CD25hiCD 1271o cells (Tregs) were re-stimulated with anti-CD3/CD28 coated beads during 24 hours, in the presence or absence of the indicated mAbs (10 , ug/ml).
  • Cells lysates were analyzed by Western Blot with antibodies against phosphorylated SMAD2 (pSMAD2), as a read-out for active TGF-13 production, or B-ACTIN (loading control).
  • pSMAD2 phosphorylated SMAD2
  • FIG. 12 M HGARP8 and LHG-10 inhibit the suppressive activity of human Tregs in vitro.
  • Th Freshly isolated human CD4+CD25-CD127hi cells (Th; 2xl0 4 per microwell) were seeded alone or with clone Treg Al (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882) at a 1/1 Treg to Th ratio.
  • Cells were stimulated with coated anti-CD3 and soluble anti-CD28, in the presence or absence of the indicated anti-hGARP mAbs (10 ⁇ «/ ⁇ 1 ).
  • FIG. 13 Forms and regions of GARP bound by anti-GARP mAbs.
  • A Schematic representations of GARP and GARP/TGF- ⁇ complexes. Protein GARP is represented by a thick curved grey line. Numbers indicate amino-acid positions. TGF- ⁇ is represented with the Latency Associated Peptide (LAP) as thick black lines, and the mature TGF- ⁇ 1 peptide as thick straight grey lines. Thin black lines represent interchain disulfide bonds.
  • LAP Latency Associated Peptide
  • B Classification of anti-hGARP mAbs based on their binding requirements.
  • hTGFB 1 was co-transfected with mGARP/hGARP chimeras for the analyses of mAbs that bind liGARP/hTGF-B 1 complexes only (LHG-3, MHGARP8 (MHG-8), LHG- 10).
  • FIG. 16 Inhibition of human Treg function by anti-hGARP in vivo.
  • A shows the protocol on day 0, the indicated groups of NSG mice received i.v. injections of human
  • FIG. 1 shows the results of 4 independent experiments ( 1 to IV), performed with cells from donors A, B or C, with the indicated numbers of mice per group (n).
  • Disease onset is the day when mean disease score becomes >1, and is indicated for 3 experimental groups in which mice were grafted with PBMCs only (group a), PBMCs and Tregs (group b), or PBMCs and Tregs and treated with MHGARP8 (MHG-8) (group c).
  • C Detailed results from experiment IV, showing the evolution of mean disease score (left) and survival curves (right) in the indicated groups of mice.
  • FIG. 17 Anti-hGARP niAbs that block TGF- ⁇ production inhibit suppression by human Tregs in vivo.
  • Top graph shows progression of disease scores (means per group + sem), bottom graph shows survival.
  • NSG mice injected as in Fig. 16, part A were sacrificed 20 days after cell transfer.
  • A Serum levels of human cytokines were measured in a multiplex bead assay.
  • each mutation corresponds to the ratio between the EC 50 of MHG-8 binding to the mutant and the EC 50 of MHG-8 binding to the WT. Mutations with a ratio >2 are considered to decrease the avidity for binding by MHG-8.
  • NE non evaluable (residual binding ⁇ 10%); nt: not tested.
  • Figure 20 Impact of mutations in GARP or TGF-B l on the inhibitory activity of MHG-8 and LHG- 10.
  • the term “immunoglobulin” includes a polypeptide having a combination of two heavy and two light chains whether or not it possesses any relevant specific immunoreactivity.
  • Antibodies refers to such assemblies which have significant known specific immunoreactive activity to an antigen of interest (e.g. human GARP).
  • GARP antibodies is used herein to refer to antibodies which exhibit immunological specificity for human GARP protein. As explained elsewhere herein, “specificity” for human GARP does not exclude cross- reaction with species homologues of GARP.
  • Antibodies and immunoglobulins comprise light and heavy chains, with or without an interchain covalent linkage between them. Basic immunoglobulin structures in vertebrate systems are relatively well understood.
  • the generic term "immunoglobulin" comprises five distinct classes of antibody that can be distinguished biochemically. All five classes of antibodies are within the scope of the present invention, the following discussion will generally be directed to the IgG class of immunoglobulin molecules. With regard to IgG, immunoglobulins comprise two identical light polypeptide chains of molecular weight approximately 23,000 Daltons, and two identical heavy chains of molecular weight 53,000-70,000 Daltons.
  • the four chains are joined by disulfide bonds in a "Y" configuration wherein the light chains bracket the heavy chains starting at the mouth of the "Y” and continuing through the variable region.
  • the light chains of an antibody are classified as either kappa or lambda ( [K], [ ⁇ ]).
  • Each heavy chain class may be bonded with either a kappa or lambda light chain.
  • the light and heavy chains are covalently bonded to each other, and the "tail" regions of the two heavy chains are bonded to each other by covalent disulfide linkages or non-covalent linkages w hen the immunoglobulins are generated either by hybridomas, B cells or genetically engineered host cells.
  • heavy chains In the heavy chain, the amino acid sequences run from an Ni-terminus at the forked ends of the Y configuration to the C-terminus at the bottom of each chain.
  • heavy chains are classified as gamma, mu, alpha, delta, or epsilon ( ⁇ , ⁇ , ⁇ , ⁇ , ⁇ ) with some subclasses among them (e.g. , yl - ⁇ 4). It is the nature of this chain that determines the "class" of the antibody as IgG, igM, IgA IgG, or IgE, respectively.
  • the immunoglobulin subclasses isotypes) e.g.
  • variable region of an antibody allows the antibody to selectively recognize and speci ically bind epitopes on antigens. That is, the VL domain and VI I domain of an antibody combine to form the variable region that defines a three dimensional antigen binding site. This quaternary antibody structure forms the antigen binding site present at the end of each arm of the Y.
  • the antigen binding site is defined by three complementarity determining regions (CDRs) on each of the ⁇ T 1 and VL chains.
  • CDRs complementarity determining regions
  • the antibody is purified : (1) to greater than 95% by weight of antibody as determined by the Lowry method, and most preferably more than 99% by weight; (2) to a degree sufficient to obtain at least 15 residues of N-terminal or internal amino acid sequence by use of a spinning cup sequenator; or (3) to homogeneity as shown by SDS-PAGE under reducing or non-reducing conditions and using Coomassie blue or, preferably, silver staining.
  • An isolated antibody includes the antibody in situ within recombinant cells since at least one component of the antibody' s natural environment will not be present. Ordinarily, however, an isolated antibody will be prepared by at least one purification step.
  • affinity variants refers to a variant antibody which exhibits one or more changes in amino acid sequence compared to a reference GARP antibody, wherein the affinity variant exhibits an altered affinity for the human GARP protein or GARP/TGF- ⁇ complex in comparison to the reference antibody.
  • affinity variants will exhibit an improved affinity for human GARP or human G.ARP/TGF- ⁇ complex, as compared to the reference GARP antibody. The improvement may be a lower KD for human GARP, a faster off- rate for human GARP, or an alteration in the pattern of cross-reactivity with non-human GARP homologues.
  • Affinity variants typically exhibit one or more changes in amino acid sequence in the CDRs, as compared to the reference GARP antibody. Such substitutions may result in replacement of the original amino acid present at a given position in the CDRs with a different amino acid residue, which may be a naturally occurring amino acid residue or a non-naturally occurring amino acid residue.
  • the amino acid substitutions may be conservative or non-conservative.
  • Binding Site comprises a region of a polypeptide which is responsible for selectiv ely binding to a target antigen of interest (e.g. human GARP). Binding domains or binding regions comprise at least one binding site. Exemplary binding domains include an antibody variable domain.
  • the antibody molecules of the invention may comprise a single antigen binding site or multiple (e.g., two, three or four) antigen binding sites.
  • Constant amino acid substitution is one in which the amino acid residue is replaced w ith an amino acid residue having a similar side chain.
  • Families of amino acid residues having similar side chains have been defined in the art, including basic side chains (e.g., lysine, arginine, histidine), acidic side chains (e.g., aspartic acid, glutamic acid ), uncharged polar side chains (e.g., glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine), nonpolar side chains (e.g., alanine, valine, leucine, isoleucine, proline, phenylalanine, methionine, tryptophan), beta- branched side chains (e.g., threonine, valine, isoleucine) and aromatic side chains (e.g., tyrosine, phenylalan
  • a nonessential amino acid residue in an immunoglobulin polypeptide may be replaced with another amino acid residue from the same side chain family.
  • a string of amino acids can be replaced with a structurally similar string that differs in order and/or composition of side chain family members.
  • a “chimeric" protein comprises a first amino acid sequence linked to a second amino acid sequence with which it is not naturally linked in nature.
  • the amino acid sequences may normally exist in separate proteins that are brought together in the fusion polypeptide or they may normally exist in the same protein but are placed in a new arrangement in the fusion polypeptide.
  • a chimeric protein may be created, for example, by chemical synthesis, or by creating and translating a polynucleotide in which the peptide regions are encoded in the desired relationship.
  • Exemplary chimeric GARP antibodies include fusion proteins comprising camelid-derived VH and VL domains, or humanised variants thereof, fused to the constant domains of a human antibody, e.g. human IgG I , IgG2, IgG3 or IgG4.
  • CDR CDR
  • CDR complementarity determining region
  • CDR means the non-contiguous antigen combining sites found within the variable region of both heavy and light chain polypeptides. These particular regions have been described by Kabat et al., J. Biol. Chem. 252, 6609-6616 ( 1977) and Kabat et al.. Sequences of protein of immunological interest. (1991), by Chothia et al ., J. Mol. Biol. 196:90 1 -9 1 7 (1987), and by MacCallum et al, J. Mol. Biol. 262:732-745 (1996) where the definitions include overlapping or subsets of amino acid residues when compared against each other. The amino acid residues which encompass the CDRs as defined by each of the above cited references are set forth for comparison.
  • the term “CDR” is a CDR as defined by Kabat based on sequence comparisons.
  • CH2 domain includes the region of a heavy chain molecule that extends, e.g. , from about residue 244 to residue 360 of an antibody using conventional numbering schemes (residues 244 to 360, Kabat numbering system; and residues 231-340, EU numbering system, Kabat EA et al. Sequences of Proteins of Immunological Interest. Bethesda, US Department of Health and Human Services, NIH. 1991 ).
  • the CH2 domain is unique in that it is not closely paired with another domain. Rather, two N-linked branched carbohydrate chains are interposed between the tw o CH2 domains of an intact native IgG molecule. It is also well documented that the CH3 domain extends from the CH2 domain to the C-terminal of the IgG molecule and comprises approximately 108 residues.
  • the GARP antibody molecules of the invention comprise framework amino acid sequences and/or CDR amino acid sequences derived from a camelid conventional antibody raised by active immunization of a camelid with GARP antigen.
  • GARP antibodies comprising camelid- derived amino acid sequences may be engineered to comprise framework and/or constant region sequences derived from a human amino acid sequence or other non- camelid mammalian species.
  • a human or non-human primate framework region, heav y chain region, and/or hinge region may be included in the subject GARP antibodies.
  • one or more non-camelid amino acids may be present in the framework region of a "camelid-derived" GARP antibody, e.g. , a camelid framework amino acid sequence may comprise one or more amino acid mutations in which the corresponding human or non-human primate amino acid residue is present.
  • camelid-derived VH and V ' L domains, or humanized variants thereof may be linked to the constant domains of human antibodies to produce a chimeric molecule, as extensively described elsewhere herein.
  • the term "derived from" a designated protein refers to the origin of the polypeptide.
  • the polypeptide or amino acid sequence which is derived from a particular starting polypeptide is a CDR sequence or sequence related thereto.
  • the amino acid sequence hich is deriv ed from a particular starting polypeptide is not contiguous. For example, in an embodiment, one, two, three, four, fiv e, or six CDRs are deriv ed from a starting antibody.
  • the polypeptide or amino acid sequence which is derived from a particular starting polypeptide or amino acid sequence has an amino acid sequence that is essentially identical to that of the starting sequence, or a region thereof wherein the region consists of at least of at least 3-5 amino acids, 5-10 amino acids, at least 10-20 amino acids, at least 20-30 amino acids, or at least 30-50 amino acids, or which is otherwise identifiable to one of ordinary skill in the art as having its origin in the starting sequence.
  • the one or more CDR sequences derived from the starting antibody are altered to produce variant CDR sequences, e.g. affinity variants, wherein the variant CDR sequences maintain GARP binding activity.
  • Diabodies refers to small antibody fragments prepared by constructing sFv fragments (see sFv paragraph) with short linkers (about 5- 10 residues) between the VI I and VL domains such that inter-chain but not intra-chain pairing of the V domains is achieved, resulting in a biv alent fragment, i.e. , fragment having two antigen-binding sites.
  • Bispecific diabodies are heterodimers of two "crosso ver” sFv fragments in which the VH and VL domains of the two antibodies are present on different polypeptide chains.
  • Diabodies are described more fully in, for example, EP 404,097; WO 93/1 1 161 ; and Holliger et al ., Proc. Natl. Acad. Sci., 90:6444-6448 (1993).
  • engineered includes manipulation of nucleic acid or polypeptide molecules by synthetic means (e.g. by recombinant techniques, in vitro peptide synthesis, by enzymatic or chemical coupling of peptides or some combination of these techniques).
  • the antibodies of the invention are engineered, including for example, humanized and/or chimeric antibodies, and antibodies which have been engineered to improve one or more properties, such as antigen binding, stability/half-life or effector function.
  • Epitope refers to a specific arrangement of amino acids located on a peptide or protein or proteins to which an antibody binds. Epitopes often consist of a chemical ly active surface grouping of molecules such as amino acids or sugar side chains, and have specific three dimensional structural characteristics as well as specific charge characteristics. Epitopes can be linear or conformational, i.e. , involving two or more sequences of amino acids in various regions of the antigen that may not necessarily be contiguous.
  • Framework region includes the amino acid residues that are part of the variable region, but are not part of the CDRs (e.g. , using the Kabat definition of CDRs). Therefore, a variable region framework is between about 100- 120 amino acids in length but includes only those amino acids outside of the CDRs.
  • framework region I corresponds to the domain of the variable region encompassing amino acids 1-30
  • framework region 2 corresponds to the domain of the variable region encompassing amino acids 36-49
  • framework region 3 corresponds to the domain of the variable region encompassing amino acids 66-94
  • framework region 4 corresponds to the domain of the variable region from amino acids 103 to the end of the variable region.
  • the framework regions for the light chain are similarly separated by each of the light claim variable region CDRs.
  • the framework region boundaries are separated by the respective CDR termini as described above.
  • the CDRs are as defined by Kabat.
  • the six CDRs present on each monomeric antibody are short, non- contiguous sequences of amino acids that are specifically positioned to form the antigen binding site as the antibody assumes its three dimensional configuration in an aqueous environment.
  • the remainder of the heavy and light variable domains show less inter- molecular variability in amino acid sequence and are termed the framework regions.
  • the framework regions largely adopt a [betaj-sheet conformation and the CDRs form loops which connect, and in some cases form part of, the [beta]-sheet structure. Thus, these framework regions act to form a scaffold that provides for positioning the six CDRs in correct orientation by inter-chain, non-covalent interactions.
  • the antigen binding site formed by the positioned CDRs defines a surface complementary to the epitope on the immunoreactive antigen. This complementary surface promotes the non- covalent binding of the antibody to the immunoreactive antigen epitope.
  • the position of CDRs can be readily identified by one of ordinary skill in the art.
  • fragment refers to a part or region of an antibody or antibody chain comprising fewer amino acid residues than an intact or complete antibody or antibody chain.
  • antigen-binding fragment refers to a polypeptide fragment of an immunoglobulin or antibody that binds antigen or competes with intact antibody (i.e. , with the intact antibody from which they were derived) for antigen binding (i.e. , specific binding to human GARP).
  • fragment of an antibody molecule includes antigen-binding fragments of antibodies, for example, an antibody light chain variable domain (VL), an antibody heavy chain variable domain (VH), a single chain antibody (scFv), a F(ab')2 fragment, a Fab fragment, an Fd fragment, an Fv fragment, a single domain antibody fragment (DAb), a one-armed (monovalent) antibody, diabodies or any antigen-binding molecule formed by combination, assembly or conjugation of such antigen binding fragments. Fragments can be obtained, e.g. , via chemical or enzymatic treatment of an intact or complete antibody or antibody chain or by recombinant means.
  • Fv is the minimum antibody fragment that contains a complete antigen-recognition and -binding site. This fragment consists of a dimer of one heavy- and one light-chain variable region domain in tight, non-covalent association. From the folding of these two domains emanate six hypervariable loops (three loops each from the H and L chain) that contribute the amino acid residues for antigen binding and confer antigen binding specificity to the antibody. However, ev en a single variable domain (or half of an Fv comprising only three CDRs specific for an antigen) has the ability to recognize and bind antigen, although at a lower affinity than the entire binding site.
  • heav y chain region includes amino acid sequences derived from the constant domains of an immunoglobulin heav y chain.
  • a polypeptide comprising a heavy chain region comprises at least one of: a CHI domain, a hinge (e.g., upper, middle, and/or lower hinge region) domain, a CH2 domain, a CH3 domain, or a v ariant or fragment thereof, in an embodiment, a binding molecule of the invention may comprise the Fc region of an immunoglobulin heavy chain (e.g., a hinge portion, a CH2 domain, and a CH3 domain).
  • a binding molecule of the invention lacks at least a region of a constant domain (e.g., all or part of a CI 12 domain).
  • at least one, and preferably all, of the constant domains are derived from a human immunoglobulin heavy chain.
  • the heavy chain region comprises a fully human hinge domain.
  • the heavy chain region comprising a fully human Fc region (e.g., hinge, CH2 and CH3 domain sequences from a human immunoglobulin ).
  • the constituent constant domains of the heavy chain region are from different immunoglobulin molecules.
  • a heavy chain region of a polypeptide may comprise a CH2 domain deriv ed from an IgGl molecule and a hinge region derived from an IgG3 or IgG4 molecule.
  • the constant domains are chimeric domains comprising regions of different immunoglobulin molecules.
  • a hinge may comprise a first region from an IgGl molecule and a second region from an IgG3 or IgG4 molecule.
  • the constant domains of the heavy chain region may be modified s ch that they vary in amino acid sequence from the naturally occurring (wild-type) immunoglobulin molecule.
  • polypeptides of the invention disclosed herein may comprise alterations or modifications to one or more of the heavy chain constant domains (CHI, hinge, CH2 or CH3) and/or to the light chain constant domain (CL).
  • exemplary modifications include additions, deletions or substitutions of one or more amino acids in one or more domains.
  • Hinge region includes the region of a heavy chain molecule that joins the CHI domain to the CH2 domain. This hinge region comprises approximately 25 residues and is flexible, thus allowing the two N -terminal antigen binding regions to move independently. Hinge regions can be subdiv ided into three distinct domains: upper, middle, and lower hinge domains (Roux et al . J. Immunol. 1998 16 1 :4083).
  • hypervariable loop and “complementarity determining region” are not strictly synonymous, since the hypervariable loops (HVs) are defined on the basis of structure, whereas complementarity determining regions (CDRs) are defined based on sequence variability ( Kabat et al , Sequences of Proteins of Immunological Interest, 5th Ed. Public Health Service, National Institutes of Health, Bethesda, Ml)., 1983) and the limits of the HVs and the CDRs may be different in some VH and VL domains.
  • the CDRs of the VL and VH domains can typically be defined as comprising the following amino acids: residues 24-34 (CDRL 1 ), 50-56 (CDRL2) and 89-97 ( CDRL3 ) in the light chain variable domain, and residues 3 1 -35 or 3 1 -3 b (CDRH 1 ), 50-65 (CDRH2) and 95- 102 (CDRH3 ) in the heav y chain variable domain; ( Kabat et al., Sequences of Proteins of Immunological Interest, 5th Ed. Public Health Service, National Institutes of Health, Bethesda, MD. (1991)).
  • the H Vs may be comprised within the corresponding CDRs and references herein to the "hyperv ariable loops" of VI I and VL domains should be interpreted as also encompassing the corresponding CDRs, and vice versa, unless otherwise indicated.
  • the more highly conserved regions of variable domains are called the framework region (FR), as defined below.
  • the v ariable domains of native heavy and light chains each comprise four FRs (FRl, FR2, FR3 and FR4, respectively), largely adopting a [beta]-sheet configuration, connected by the three hypervariable loops.
  • the hypervariable loops in each chain are held together in close proximity by the FRs and, with the hypervariable loops from the other chain, contribute to the formation of the antigen-binding site of antibodies.
  • Structural analysis of antibodies revealed the relationship between the sequence and the shape of the binding site formed by the complementarity determining regions (Chothia et ai, J. Mol. Biol. 227: 799-817 (1992)); Tramontane et al., J. Mol. Biol, 215 : 175-182 (1990)).
  • five of the six loops adopt just a small repertoire of main-chain conformations, called "canonical structures " . These conformations are first of all determined by the length of the loops and secondly by the presence of key residues at certain positions in the loops and in the framework regions that determine the conformation through their packing, hydrogen bonding or the ability to assume unusual main-chain conformations.
  • “Humanising substitutions” refers to amino acid substitutions in which the amino acid residue present at a particular position in the VH or VL domain antibody GA RP antibody (for example a camelid- derived GARP antibody) is replaced with an amino acid residue which occurs at an equivalent position in a reference human VH or VL domain .
  • the reference human VH or VL domain may be a VH or VL domain encoded by the human germ line, in which case the substituted residues may be referred to as “germlining substitutions " .
  • H uman i si ng/ge m 1 i n i ng substitutions may be made in the framework regions and/or the CDRs of a GARP antibody, defined herein.
  • High human homology An antibody comprising a heavy chain variable domain ( VH ) and a light chain variable domain (VL) will be considered as having high human homology if the VH domains and the VL domains, taken together, exhibit at least 90% amino acid sequence identity to the closest matching human germline VH and VL sequences.
  • Antibodies having high human homology may include antibodies comprising VH and VL domains of native non-human antibodies which exhibit sufficiently high % sequence identity human germline sequences, including for example antibodies comprising VH and VL domains of camelid conventional antibodies, as well as engineered, especially humanized, variants of such antibodies and also "fully human" antibodies.
  • the VH domain of the antibody with high human homology may exhibit an amino acid sequence identity or sequence homology of 80% or greater with one or more human VH domains across the framework regions FR l , FR2, FR3 and FR4.
  • the amino acid sequence identity or sequence homology between the VH domain of the polypeptide of the invention and the closest matching human germline VH domain sequence may be 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100%.
  • the VH domain of the antibody with high human homology may contain one or more(e.g.
  • the VL domain of the antibody with high human homology may exhibit a sequence identity or sequence homology of 80% or greater with one or more human VL domains across the framework regions FRl, FR2, FR3 and FR4
  • the amino acid sequence identity or sequence homology between the VL domain of the polypeptide of the invention and the closest matching human germline VL domain sequence may be 85% or greater 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% .
  • the VL domain of the antibody with high human homology may contain one or more (e.g. 1 to 10) amino acid sequence mis-matches across the framework regions FRl, FR2, FR3 and FR4, in comparison to the closest matched human VL sequence.
  • the canonical folds may be determined, w hich allow the identification of the family of human germline segments with the identical combination of canonical folds for H 1 and H2 or L 1 and L2 (and L3).
  • the human germline family member that has the highest degree of sequence homology with the variable region of the antibody of interest is chosen for scoring the sequence homology.
  • the determination of Chothia canonical classes of hypervariable loops L I , L2, L3, I I 1 and H2 can be performed ith the bioinformatics tools publicly available on webpage www . b i o i n f . org . u k/ab s/ch o t h i a . h t m 1. page .
  • the output of the program shows the key residue requirements in a data file. In these data files, the key residue positions are shown with the allowed amino acids at each position.
  • the sequence of the variable region of the antibody of interest is given as input and is first aligned with a consensus antibody sequence to assign the Kabat numbering scheme.
  • the analysis of the canonical folds uses a set of key residue templates derived by an automated method developed by Martin and Thornton (Martin et al., J. Mol. Biol. 263 :800-815 (1996)).
  • Martin and Thornton Martin et al., J. Mol. Biol. 263 :800-815 (1996).
  • the best matching family member in terms of sequence homology can be determined.
  • bioinformatics tools the percentage sequence identity between the VH and VL domain framework amino acid sequences of the antibody of interest and corresponding sequences encoded by the human germline can be determined, but actually manual alignment of the sequences can be applied as well.
  • Human immunoglobulin sequences can be identified from several protein data bases, such as X Base ( http ://vbase. mrc-cpe. cam ac . uk/ ) or the Pluckthun/Honegger database (http:// ' ww i w.bioc.unizh.ch, / antibody/Sequeiices/Germline s).
  • X Base http ://vbase. mrc-cpe. cam ac . uk/
  • Pluckthun/Honegger database http:// ' ww i w.bioc.unizh.ch, / antibody/Sequeiices/Germline s.
  • sequence alignment algorithm such as available via websites like www. expasy.ch/tools/# align can be used, but also manual alignment with the limited set of sequences can be performed.
  • the boundaries of the individual framework regions may be assigned using the I MOT numbering scheme, which is an adaptation of the numbering scheme of Chothia (Lefranc et al., NAR 27: 209-212 (1999); http://im.gt.cines.fr).
  • Antibodies with high human homology may comprise hypervariable loops or CDRs having human or human-like canonical folds, as discussed in detail below.
  • At least one hypervariable loop or CDR in either the VH domain or the VL domain of the antibody with high human homology may be obtained or derived from a VH or VL domain of a non-human antibody, for example a conventional antibody from a species of Camelidae, yet exhibit a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies.
  • the predicted canonical fold structures for the hypervariable loops of any given VH or VL sequence in an antibody with high human homology can be analysed using algorithms which are publicly available from www.bioinf.org.uk/abs/chothia.html, www .biochem.ucl.ac uk/ - martin/antibodies. html and wwv.bioc.unizh.ch/antibody/Sequences/Germlines/Vbase_hVk.html. These tools permit query VH or VL sequences to be aligned against human VH or VL domain sequences of known canonical structure, and a prediction of canonical structure made for the hypervariable loops of the query sequence.
  • HI and H2 loops may be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if at least the first, and preferable both, of the following criteria are ful illed:
  • the H I and H2 loops in the antibody of interest may also be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if the length of the loop differs from that of the closest matching human canonical structural class (typical ly by +1 or +2 amino acids) but the actual structure of the H I and H2 loops in the antibody of interest matches the structure of a human canonical fold.
  • both HI and H2 in the VH domain of the antibody with high human homology exhibit a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies.
  • Antibodies with high human homology may comprise a VH domain in which the hypervariable loops H 1 and H2 form a combination of canonical fold structures which is identical to a combination of canonical structures known to occur in at least one human germline VH domain. It has been observed that only certain combinations of canonical fold structures at H I and H2 actually occur in V I 1 domains encoded by the human germline.
  • H I and H2 in the VH domain of the antibody with high human homology may be obtained from a VH domain of a non-human species, e.g. a Camelidae species, yet form a combination of predicted or actual canonical fold structures hich is identical to a combination of canonical fold structures known to occur in a human germline or somatically mutated VH domain .
  • H 1 and I I 2 in the VH domain of the antibody with high human homology may be obtained from a VH domain of a non-human species, e.g.
  • An antibody with high human homology may contain a V I I domain which exhibits both high sequence identity/sequence homology with human VH, and which contains hypervariable loops exhibiting structural homology with human VI I. It may be advantageous for the canonical folds present at HI and H2 in the VH domain of the antibody with high human homology, and the combination thereof, to be "correct" for the human VH germline sequence which represents the closest match w ith the VH domain of the antibody with high human homology in terms of overall primary amino acid sequence identity.
  • H 1 and H2 may be advantageous for H 1 and H2 to form a combination of canonical folds which also occurs naturally in a human VH3 domain.
  • This may be particularly important in the case of antibodies w ith high human homology which are derived from non-human species, e.g. antibodies containing VH and VL domains which are derived from camelid conventional antibodies, especially antibodies containing humanised camelid VH and VL domains.
  • the VH domain of the GARP antibody w ith high human homology may exhibit a sequence identity or sequence homology of 80% or greater, 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% with a human VH domain across the framework regions FR I , FR2 , FR3 and FR4, and in addition H 1 and 112 in the same antibody are obtained from a non-human VH domain (e.g.
  • LI and L2 in the VL domain of the antibody with high human homology are each obtained from a VL domain of a non-human species (e.g. a camel id-derived VL domain), and each exhibits a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies.
  • the hypervariable loops of VL domains of both VLambda and V appa types can adopt a limited number of conformations or canonical structures, determined in part by length and also by the presence of key amino acid residues at certain canonical positions.
  • L 1 , L2 and L3 loops obtained from a VL domain of a non-human species e.g. a Camel idae species, may be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if at least the first, and preferable both, of the following criteria are fulfilled:
  • L 1 , 1.2 or L3 loops derived from the antibody of interest may also be scored as having a canonical fold structure "substantial ly identical" to a canonical fold structure known to occur in human antibodies if the length of the loop differs from that of the closest matching human canonical structural class (typically by +1 or +2 amino acids) but the actual structure of the Camelidae loops matches a human canonical fold.
  • Key amino acid residues found in the human canonical structural classes for the CDRs of human VLambda and V Kappa domains are described by Morea et al.
  • LI and L2 in the VLambda domain of an antibody with high human homology may form one of the following canonical fold combinations: 1 1 -7, 13-7(A,B,C), 14-7( A,B), 1 2- 1 1 , 14- 1 1 and 12- 12 (as defined in Williams et al. J. Mol. Biol. 264:220 -32 (1996) and as shown on http://www.bioc.uzh h/antibody/Sequences/Germlines/VBase_hVL.html).
  • L 1 and L2 in the Vkappa domain may form one of the following canonical fold combinations: 2- 1, 3- 1 , 4- 1 and 6- 1 (as defined in Tomlinson et al. EMBO J . 14:4628-38 ( 1995 ) and as shown on http://www.bioc.uzh.ch/antibody/Sequences/Germlines/VBase _hVK.html).
  • all three of L 1 , L2 and L3 in the VL domain of an antibody with high human homology may exhibit a substantial ly human structure. It is preferred that the VL domain of the antibody with high human homology exhibit both high sequence identity/sequence homology ith human VL, and also that the hypervariable loops in the VL domain exhibit structural homology with human VL.
  • the VL domain of the GARP antibody with high human homology may exhibit a sequence identity of 80% or greater, 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% with a human VL domain across the framework regions FR I , FR2 , FR3 and FR4, and in addition hypervariable loop L 1 and hypervariable loop L2 may form a combination of predicted or actual canonical fold structures which is the same as a canonical fold combination known to occur naturally in the same human VL domain.
  • VH domains exhibiting high sequence identity/sequence homology with human VH, and also structural homology w ith hyperv ariable loops of human VH will be combined with VL domains exhibiting high sequence identity/sequence homology with human VL, and also structural homology with hypervariable loops of human VL to provide antibodies with high human homology containing VH/VL pairings (e.g. camel id-derived VH/VL pairings) with maximal sequence and structural homology to human-encoded VH/VL pairings.
  • VH/VL pairings e.g. camel id-derived VH/VL pairings
  • an antibody is said to be “immunospecific”, “specific for” or to “specifically bind” an antigen if it reacts at a detectable level with the antigen, preferably ith an affinity constant, Ka, of greater than or equal to about 10 4 M _1 , or greater than or equal to about l O 5 M “1 , greater than or equal to about 10 6 M “1 , greater than or equal to about 10 7 M “1 , or greater than or equal to 10 8 M “1 , or greater than or equal to 10 9 M “1 , or greater than or equal to 10 1 ⁇ M "1 .
  • Ka affinity constant
  • Affinity of an antibody for its cognate antigen is also commonly expressed as a dissociation constant Kd, and in certain embodiments, an antibody specifically binds to antigen if it binds with a Kd of less than or equal to 10 "4 M, less than or equal to about 10 "5 M, less than or equal to about 10 "6 M, less than or equal to 10 " ' M, or less than or equal to 10 "8 M, or less than or equal to 5. 10 "9 M, or less than or equal to 10 “9 M, or less than or equal to 5.10 "10 M, or less than or equal to 10 "10 M. Affinities of antibodies can be readily determined using conventional techniques, for example, those described by Scatchard G et al.
  • IHC immuno-histochemistry
  • FACS fluorescence-activated cell sorting
  • the term embraces a nucleic acid sequence that has been removed from its naturally occurring environment, and includes recombinant or cloned DNA isolates and chemically synthesized analogues or analogues biologically synthesized by heterologous systems.
  • a substantially pure nucleic acid includes isolated forms of the nucleic acid. Of course. this refers to the nucleic acid as originally isolated and does not exclude genes or sequences later added to the isolated nucleic acid by the hand of man.
  • polypeptide is used in its conventional meaning, i.e., as a sequence of amino acids. The polypeptides are not limited to a specific length of the product.
  • polypeptide Peptides, oligopeptides, and proteins are included within the definition of polypeptide, and such terms may be used interchangeably herein unless specifically indicated otherwise. This term also does not refer to or exclude post-expression modifications of the polypeptide, for example, glycosylation, acetylation, phosphorylation and the like, as well as other modifications known in the art, both naturally occurring and non-naturally occurring.
  • a polypeptide may be an entire protein, or a subsequence thereof. Particular polypeptides of interest in the context of this invention are amino acid subsequences comprising CDRs and being capable of binding an antigen.
  • An "isolated polypeptide" is one that has been identified and separated and/or recovered from a component of its natural environment.
  • the isolated polypeptide will be purified (1) to greater than 95% by weight of polypeptide as determined by the Lowry method, and most preferably more than 99% by weight, (2) to a degree sufficient to obtain at least 15 residues of N-terminal or internal amino acid sequence by use of a spinning cup sequenator, or (3) to homogeneity by SDS-PAGE under reducing or non-reducing conditions using Coomassie blue or, preferably, silver staining.
  • Isolated polypeptide includes the polypeptide in situ within recombinant cells since at least one component of the polypeptide's natural environment will not be present. Ordinarily, however, isolated polypeptide will be prepared by at least one purification step.
  • identity refers to the degree of sequence relatedness between polypeptides, as determined by the number of matches between strings of two or more amino acid residues. “Identity” measures the percent of identical matches between the smaller of two or more sequences with gap alignments (if any) addressed by a particular mathematical model or computer program (i.e., "algorithms"). Identity of related polypeptides can be readily calculated by known methods. Such methods include, but are not limited to, those described in Computational Molecular Biology, Lesk, A.
  • Preferred methods for determining identity are designed to give the largest match between the sequences tested. Methods of determining identity are described in publicly available computer programs. Preferred computer program methods for determining identity between two sequences include the GCG program package, including GAP (Devereux et al., Nucl. Acid. Res. ⁇ 2, 387 (1984); Genetics Computer Group, University of Wisconsin, Madison, Wis.), BLASTP, BLASTN, and FASTA ( Altschul et al., J. Mol. Biol. 215, 403-410 (1990)). The BLASTX program is publicly available from the National Center for Biotechnology Information (NCBI) and other sources (BLAST Manual, Altschul et al. NCB/NLM/NIH Bethesda, Md. 20894; Altschul et al, supra). The well-known Smith Waterman algorithm may also be used to determine identity.
  • NCBI National Center for Biotechnology Information
  • Modified antibody includes synthetic forms of antibodies which are altered such that they are not naturally occurring, e.g., antibodies that comprise at least two heavy chain regions but not two complete heavy chains (such as, domain deleted antibodies or minibodies); multispecific forms of antibodies (e.g., bispecific, trispecific, etc.) altered to bind to two or more different antigens or to different epitopes on a single antigen); heavy chain molecules joined to scFv molecules and the like. ScFv molecules are known in the art and are described, e.g., in US patent 5,892,019.
  • modified antibody includes multivalent forms of antibodies (e.g., trivalent, tetravalent, etc., antibodies that bind to three or more copies of the same antigen).
  • a modified antibody of the invention is a fusion protein comprising at least one heavy chain region lacking a CH2 domain and comprising a binding domain of a polypeptide comprising the binding region of one member of a receptor ligand pair.
  • mammal refers to any mammal, including humans, domestic and farm animals, and zoo, sports, or pet animals, such as dogs, cats, cattle, horses, sheep, pigs, goats, rabbits, etc. Preferably, the mammal is human.
  • “Monoclonal antibody” refers to an antibody obtained from a population of substantially homogeneous antibodies, i.e. , the individual antibodies comprised in the population are identical except for possible naturally occurring mutations that may be present in minor amounts. Monoclonal antibodies are highly specific, being directed against a single antigenic site. Furthermore, in contrast to polyclonal antibody preparations that include different antibodies directed against different determinants (epitopes), each monoclonal antibody is directed against a single determinant on the antigen. In addition to their specificity, the monoclonal antibodies are advantageous in that they may be synthesized uncontaminated by other antibodies.
  • the modifier "monoclonal" is not to be construed as requiring production of the antibody by any particular method.
  • the monoclonal antibodies useful in the present invention may be prepared by the hybridoma methodology first described by K oh let " et al., Nature, 256:495 (1975), or may be made using recombinant DNA methods in bacterial, eukaryotic animal or plant cells (see, e.g. , U. S. Pat. No 4,8 16,567).
  • the “monoclonal antibodies” may also be isolated from phage antibody libraries using the techniques described in Clackson et al., Nature, 352:624-628 (1991) and Marks et al., J. Mol. Biol., 222: 58 1 -597 (1991), for example.
  • “Native sequence” refers to a polynucleotide is one that has the same nucleotide sequence as a polynucleotide derived from nature.
  • a “native sequence” polypeptide is one that has the same amino acid sequence as a polypeptide (e.g. , antibody) derived from nature (e.g., from any species).
  • Such native sequence polynucleotides and polypeptides can be isolated from nature or can be produced by recombinant or synthetic means.
  • a polynucleotide "variant" is a polynucleotide that typically differs from a polynucleotide specifically disclosed herein in one or more substitutions, deletions, additions and/or insertions. Such variants may be naturally occurring or may be synthetically generated, for example, by modifying one or more of the polynucleotide sequences of the invention and evaluating one or more biological activities of the encoded polypeptide a s described herein and/or using any of a number of techniques well known in the art.
  • a polypeptide "variant" is a polypeptide that typically differs from a polypeptide specifically disclosed herein in one or more substitutions, deletions, additions and/or insertions. Such variants may be naturally occurring or may be synthetically generated, for example, by modifying one or more of the above polypeptide sequences of the invention and evaluating one or more biological activities of the polypeptide as described herein and/or using any of a number of techniques well known in the art. Modifications may be made in the structure of the polynucleotides and polypeptides of the present invention and still obtain a functional molecule that encodes a variant or derivativ e polypeptide with desirable characteristics.
  • amino acid sequence of a polypeptide When it is desired to alter the amino acid sequence of a polypeptide to create an equivalent, or even an improved, v ariant or region of a polypeptide of the invention, one skilled in the art will typically change one or more of the codons of the encoding DNA sequence. For example, certain amino acids may be substituted for other amino acids in a protein structure without appreciable loss of its ability to bind other polypeptides (e.g., antigens) or cells.
  • polypeptides e.g., antigens
  • a “conservative substitution” is one in which an amino acid is substituted for another amino acid that has similar properties, such that one skilled in the art of peptide chemistry would expect the secondary structure and hydropathic nat ure of the polypeptide to be substantially unchanged.
  • amino acid substitutions are generally therefore based on the relative similarity of the amino acid side-chain substituents, for example, their hydrophobicity, hydrophilicity, charge, size, and the like.
  • Exemplary substitutions that take several of the foregoing characteristics into consideration are well known to those of skill in the art and include: arginine and lysine; glutamate and aspartate; serine and threonine; glutamine and asparagine; and valine, leucine and isoleucine.
  • Amino acid substitutions may further be made on the basis of similarity in polarity, charge, solubility, hydrophobicity, hydrophilicity and/or the amphipathic nature of the residues.
  • negatively charged amino acids include aspartic acid and glutamic acid
  • positively charged amino acids include lysine and arginine
  • amino acids with uncharged polar head groups having similar hydrophilicity values include leucine, isoleucine and valine; glycine and alanine; asparagine and glutamine; and serine, threonine, phenylalanine and tyrosine.
  • variant polypeptides differ from a native sequence by substitution, deletion or addition of five amino acids or fewer.
  • Variants may also (or alternatively) be modified by, for example, the deletion or addition of amino acids that have minimal influence on the immunogenicity, secondary structure and hydropathic nature of the polypeptide.
  • “Pharmaceutically acceptable excipient” includes any and all solvents, dispersion media, coatings, antibacterial and antifungal agents, isotonic and absorption delaying agents and the like. Said excipient does not produce an adverse, allergic or other untoward reaction when administered to an animal, preferably a human. For human administration, preparations should meet sterility, pyrogenicity, and general safety and purity standards as required by FDA Office of Biologies standards.
  • Specificity refers to the ability to specifically bind (e.g., immunoreact with) a given target, e.g., GARP.
  • a polypeptide may be monospecific and contain one or more binding sites which specifically bind a target, or a polypeptide may be multi specific and contain two or more binding sites which specifically bind the same or different targets.
  • an antibody of the invention is specific for more than one target.
  • a multispecific binding molecule of the invention binds to GARP and a second molecule expressed on a tumor cell.
  • Exemplary antibodies which comprise antigen binding sites that bind to antigens expressed on tumor cells are known in the art and one or more CDRs from such antibodies can be included in an antibody of the in vention.
  • Synthetic with respect to polypeptides includes polypeptides which comprise an amino acid sequence that is not naturally occurring.
  • non-naturally occurring polypeptides are modified forms of naturally occurring polypeptides (e.g., comprising a mutation such as an addition, substitution or deletion) or polypeptides which comprise a first amino acid sequence (which may or may not be naturally occurring) that is linked in a linear sequence of amino acids to a second amino acid sequence (which may or may not be naturally occurring) to which it is not naturally linked in nature.
  • Single-chain Fv also abbreviated as “sFv” or “scFv” -
  • the terms “Single-chain Fv”, “sFv” or “scFv” are antibody fragments that comprise the VFI and VL antibody domains connected into a single polypeptide chain.
  • the sFv polypeptide further comprises a polypeptide linker between the VFI and VL domains that enables the sFv to form the desired structure for antigen binding.
  • sFv see Pluckthun in The Pharmacology of Monoclonal Antibodies, vol. 113, Rosenburg and Moore eds., Springer- Ver lag, New York, pp. 269-315 (1994); Borrebaeck 1995, infra.
  • variable region or “variable domain” -
  • variable refers to the fact that certain regions of the variable domains VH and VL differ extensively in sequence among antibodies and are used in the binding and specificity of each particular antibody for its target antigen. However, the variability is not evenly distributed throughout the variable domains of antibodies. It is concentrated in three segments called “hypervariable loops" in each of the VL domain and the VFI domain which form part of the antigen binding site.
  • the first, second and third hypervariable loops of the V Lambda light chain domain are referred to herein as LI ( ⁇ ), L2 ( ⁇ ) and L3 ( ⁇ ) and may be defined as comprising residues 24-33 (L1( ), consisting of 9, 10 or 11 amino acid residues), 49-53 L2 ( ⁇ ), consisting of 3 residues) and 90-96 (L3 k), consisting of 6 residues) in the VL domain (Morea et al., Methods 20:267-279 (2000)).
  • the first, second and third hypervariable loops of the VKappa light chain domain are referred to herein as L1(K), L2(K) and L3(K) and may be defined as comprising residues 25-33 (L1(K), consisting of 6, 7, 8, 1 1, 12 or 13 residues), 49-53 (L2(K), consisting of 3 residues) and 90-97 (L3(K), consisting of 6 residues) in the VL domain (Morea et al. , Methods 20:267-279 (2000)).
  • the first, second and third hypervariable loops of the VH domain are referred to herein as HI, H2 and H3 and may be defined as comprising residues 25-33 (HI, consisting of 7, 8 or 9 residues), 52-56 (H2, consisting of 3 or 4 residues) and 91-105 (H3, highly variable in length) in the VH domain (Morea et al, Methods 20:267-279 (2000)).
  • L I , L2 and L3 respectively refer to the first, second and third hypervariable loops of a VL domain, and encompass hypervariable loops obtained from both Vkappa and V lambda isotypes.
  • HI, H2 and H3 respectively refer to the first, second and third hypervariable loops of the VH domain, and encompass hypervariable loops obtained from any of the known heavy chain isotypes, including [gamma], [epsilon], [delta], a or [mu].
  • the hypervariable loops L , L2, L3, HI, H2 and H3 may each comprise part of a "complementarity determining region" or "CDR", as defined below.
  • valency refers to the number of potential target binding sites in a polypeptide. Each target binding site specifically binds one target molecule or specific site on a target molecule. When a polypeptide comprises more than one target binding site, each target binding site may specifically bind the same or different molecules (e.g., may bind to different ligands or different antigens, or different epitopes on the same antigen).
  • the subject binding molecules preferably have at least one binding site specific for a human GARP molecule.
  • the GARP antibodies provided herein may be at least bivalent.
  • Treating” or “treatment” or “alleviation” refers to both therapeutic treatment and prophylactic or preventative measures; wherein the object is to prevent or slow down (lessen) the targeted pathologic condition or disorder.
  • Those in need of treatment include those already with the disorder as well as those prone to have the disorder or those in whom the disorder is to be prevented.
  • a subject or mammal is successfully "treated” for an infection if, after receiving a therapeutic amount of an antibody according to the methods of the present invention, the patient shows observable and/or measurable reduction in or absence of one or more of the following: reduction in the number of pathogenic cells; reduction in the percent of total cells that are pathogenic; and/or relief to some extent, of one or more of the symptoms associated with the specific disease or condition, reduced morbidity and mortality, and improvement in quality of life issues.
  • the above parameters for assessing successful treatment and improvement in the disease are readily measurable by routine procedures familiar to a physician.
  • TGF- ⁇ refers to the three isoforms named TGF- ⁇ , TGF-P2 and ⁇ - ⁇ 3.
  • the peptide structures of the TGF- ⁇ isoforms are highly similar (homologies on the order of 70-80 %). They are all encoded as large protein precursors, TGF- ⁇ 1 (Gen Bank Access No: NM_000660 contains 390 amino acids and ⁇ : - ⁇ 2 (GenBank Access No: NM 001 135599 and NM 003238) and TGF ⁇ 33 (GenBank Access No: XM_005268028) each contain 4 12 amino acids.
  • TGF- ⁇ 1 has the following amino acid sequence:
  • LAP has the following amino acid sequence:
  • TGF- ⁇ ⁇ has the following amino acid sequence:
  • One object of the invention is a protein binding to GARP in the presence of TGF-13.
  • Another object of the invention is a protein comprising an antigen binding domain, wherein the antigen binding domain binds specifically to GARP in the presence of
  • said protein binds to GARP only in the presence of TGF- ⁇ .
  • GARP is also called Leucin Rich Repeat Containing 32 ( LRRC32) and belongs to the Leucin Rich Repeat family.
  • SEQ I D NO: 1 GenBank Accession NJV1 001 128922
  • the protein of the invention binds to GARP when GARP is complexed to T GF-13.
  • the protein of the invention binds to GARP when GARP is complexed to latent TGF-13. In another embodiment, the protein of the invention binds to a complex of G ARP and TGF-13. In an embodiment, the protein of the invention binds to a complex of GARP and TGF- B l ; TGF-B2, isoform 1 ; TGF-B2, isoform 2; TGF-B3. Preferably, the protein of the invention binds to a complex of GARP and TGF-B 1 .
  • the protein of the invention binds to a complex of G ARP and latent TGF-B.
  • lymphothelial TGF-B as used herein comprises a complex whose C-terminal fragment, or mature TGF-B 1 , remains non-covalently bound to the N-terminal fragment known as LAP.
  • the protein of the invention binds to a complex of G ARP and latent TGF-B at a KD (the equilibrium dissociation constant between the antibody and its antigen) of less than 10 "! 0 M.
  • said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi- specific antibody, a diabody, a triabody, a tetrabody.
  • said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
  • said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
  • a domain antibody is well known in the art and refers to the smallest functional binding units of antibodies, corresponding to the variable regions of either the heavy or light chains of antibodies.
  • a nanobody is ell known in the art and refers to an antibody-derived therapeutic protein that contains the unique structural and functional properties of naturally- occurring heavy chain antibodies. These heavy chain antibodies contain a single variable domain (VHH) and two constant domains (CH2 and CH3).
  • VHH single variable domain
  • CH2 and CH3 constant domains
  • a unibody is well known in the art and refers to an antibody fragment lacking the hinge region of IgG4 antibodies. The deletion of the hinge region results in a molecule that is essentially half the size of traditional IgG4 antibodies and has a univalent binding region rather than the bivalent biding region of IgG4 antibodies.
  • An affibody is well known in the art and refers to affinity proteins based on a 58 amino acid residue protein domain, derived from one of the IgG binding domain of staphylococcal protein A.
  • DARPins Designed Ankyrin Repeat Proteins
  • DRP designed repeat protein
  • Anticalins are well known in the art and refer to another antibody mimetic technology, wherein the binding specificity is derived from lipocalins. Anticalins may also be formatted as dual targeting protein, called Duocalins.
  • Avimers are ell known in the art and refer to another antibody mimetic technology. Versabodies are well known in the art and refer to another antibody mimetic technology. They are small proteins of 3-5 kDa with >15% cysteines, which form a high disulfide density scaffold, replacing the hydrophobic core the typical proteins have.
  • said protein is an immunoconjugate comprising an antibody or fragment thereof conjugated to a therapeutic agent.
  • said protein is a conjugate comprising the protein of the invention conjugated to an imaging agent. Said protein could be used for example for imaging applications.
  • Another object of the invention is a protein that binds to G ARP and inhibits TGF- ⁇ signaling.
  • said protein binds to GARP when GARP is complexed to TGF- ⁇ .
  • said protein binds to GARP when GARP is complexed to latent TGF- ⁇ .
  • said protein binds to a complex of GARP and TGF-13. In another embodiment, said protein binds to a complex of GARP and latent TGF-B.
  • said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi- specific antibody, a diabody, a triabody, a tetrabody.
  • said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
  • said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
  • said protein is an anti-hGARP (anti human GARP) antibody or antigen binding fragment thereof that inhibits TGF-B signaling.
  • anti-hGARP anti human GARP
  • said protein prevents or inhibits active TGF-B to be released or inhibits the release of mature TGF-B from GARP/ TGF-B. In an embodiment, said protein prevents or inhibits the release of active TGF-B from membrane-bound GARP/TGF-B.
  • said protein prevents or inhibits active TGF-B to be released or inhibits the release of mature TGF-B from Tregs.
  • said protein inhibits or prevents mature TGF-B to bind to TGF- B receptors.
  • said protein inhibits TGF-B activity and/or the activation of molecules from the TGF-B receptor signaling pathway.
  • the term “inhibit” means that the protein is capable of blocking, reducing, preventing or neutralizing TGF-B signaling or the release of mature TGF-B from Tregs or the binding of mature TGF-B to TGF-B receptors or TGF-B activity and/or the activation of molecules from the TGF-B receptor signaling pathway.
  • said protein is a monoclonal antibody. In another embodiment, said protein is a polyclonal antibody. In an embodiment, said protein binds to a conformational epitope.
  • said conformational epitope comprises one or more amino acids of hGARP.
  • said conformational epitope comprises an epitope of GARP modified as a result of GARP being complexed with latent TGF- ⁇ .
  • said conformational epitope comprises amino acids of hGARP and amino acids of latent TGF-B.
  • said conformational epitope is a mixed conformational epitope and comprises amino acids from both GARP and TGF-B.
  • said conformational epitope is a binding-induced conformational epitope and comprises amino acids from GARP only, but that adopts a different conformation in the presence of TGF-B.
  • said epitope comprises one or more residues from 101 to 141 residues of hG ARP amino acid sequence (SEQ ID NO: 1 ).
  • said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence ( SEQ ID NO: 1). In another embodiment of the invention, said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence ( SEQ ID NO: 1) and requires the presence of TGF-B.
  • said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence (SEQ ID NO: 1) and 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, I I, 12, 13, 14, 15, 16, 17, 18, 19, 20 contiguous residues in N-terminal and/or C- terminal of the residues 137, 138 and 139: YSG of SEQ ID NO: 1 .
  • said epitope comprises the residues 137, 138 and 139: YSG of hG ARP amino acid sequence (SEQ ID NO: 1) and 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, 20 contiguous residues in N-terminal and/or C- terminal of the residues 137, 138 and 139: YSG of SEQ ID NO: 1, and requires the presence of TGF- ⁇ .
  • the protein of the invention binds to epitopes preferably within the region 10 1 - 14 1 of hGARP and inhibits the release of latent TGF-13 from GARP.
  • One skilled in the art can determine the ability of a protein to inhibit TGF-13 signaling by measuring for example activation of molecules from the TGF- ⁇ receptor signaling pathway.
  • One example of such test is the measurement of the phosphorylation of SMAD2 (as shown in Example 2 of the present invention).
  • Another object of the invention is a protein binding to an epitope of a complex formed by human GARP and TGF-13, said epitope comprising at least one of the residues 137, 138, or 139 of GARP (SEQ I D NO: 1) and at least one residue of TGF-13 (SEQ ID NO: 53).
  • said protein is an antibody or an antigen binding fragment thereof.
  • said antibody or antigen binding fragment thereof is selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi-specific antibody, a diabody, a triabody, a tetrabody; or an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody; or an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ I D NO: 1). In another embodiment, the epitope comprises at least one of the residues 137, 138, or 139 of G ARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide ( LAP ) of TGF-B (SEQ ID NO: 54) and at least one residue from mature TGF-B
  • the epitope comprises at least one of the residues 137, 138, or 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 1 8, 19, or 20 residue(s) from the Latency associated peptide (LAP) ( SEQ ID NO: 54) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B ( SEQ ID NO: 55).
  • LAP Latency associated peptide
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55).
  • LAP Latency associated peptide
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least I, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, 273 of TGF-B (SEQ ID NO: 53) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55).
  • LAP Latency associated peptide
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least I, 2, 3, 4, 5, 6, 7, 8, 9, 10, I I, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, or 6 residue* s) from mature TGF-B (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF B (SEQ ID NO: 53).
  • LAP Latency associated peptide
  • SEQ ID NO: 55 selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF B (SEQ ID NO: 53).
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF- ⁇ (SEQ ID NO: 53) and at least 1, 2, 3, 4, 5, or 6 residue(s) from mature TGF-B (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 34 1 , and 345 of TGF 13 (SEQ ID NO: 53 ).
  • LAP Latency associated peptide
  • the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 1 3, or 14 residue(s) selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, 273, 284, 336, 337, 338, 341, and 345 of TGF-B (SEQ ID NO: 53).
  • the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 1 89 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 1 8, 19, or 20 residue(s) from mature TGF-B ( SEQ ID NO: 55).
  • LAP Latency associated peptide
  • the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1 ) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP ( SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF-B and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55).
  • LAP Latency associated peptide
  • the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 1 89 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, or 6 residue(s) from mature TGF- ⁇ (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 341 , and 345 of TGF 13 (SEQ ID NO: 53).
  • LAP Latency associated peptide
  • the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 1 2, 13, 14, 15, 1 6, 1 7, 1 8, or 19 residue(s) selected from the group of residues I 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP (SEQ ID NO: 1 ) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (L AP) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF- ⁇ and at least 1 , 2, 3, 4, 5, and 6 residue(s) from mature TGF- ⁇ ( SEQ ID NO: 55 ) selected from the group of residues 284, 336, 337, 338, 34 1 , and 3
  • An object of the invention is an antibody against human GARP or antigen binding fragment thereof wherein the variable region of the heavy chain comprises at least one of the fallowings CDRs:
  • VH-CDR1 GFSLTGYGIN (SEQ ID NO: 2) or GYGIN (SEQ ID NO: 52);
  • VH-CDR2 MIWSDGSTDYNSVLTS (SEQ ID NO: 3);
  • VH-CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the follow ings CDRs:
  • VL-CDRl KASDHIKNWLA (SEQ I D NO: 5);
  • VL-CDR2 GATSLEA ( SEQ ID NO: 6);
  • VL-CDR3 QQYWSTPWT (SEQ ID NO: 7).
  • Another object of the inv ention is an antibody against human G ARP or antigen binding fragment thereof wherein the variable region of the heavy chain comprises at least one of the followings CDRs:
  • VH-CDR1 SYYID ( SEQ ID NO: 13);
  • VH-CDR2 RTOPEDGGTKYAQKFQG (SEQ ID NO: 14); and VH-CDR3: NEWETVWGDLMYEYEY (SEQ ID NO: 15).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the fallowings CDRs:
  • VL-CDR1 QASQXil X 2 S X 3 LA (SEQ ID NO: 16), wherein Xi is S or T, X 2 is S or V, X 3 is Y or F;
  • VL-CDR2 1 1 SX 5X X5T (SEQ ID NO: 17), wherein X, is G or R; X 2 is A or
  • X 3 is R or I
  • X 4 is L or P
  • X 5 is Q or K
  • VL-CDR3 QQYX] SX 2 PX 3 T, wherein Xj is D, A, Y or V; X 2 is A, L or V; X 3 is V or P (SEQ ID NO: 18).
  • variable region of the heavy chain comprises the VH-CDR l of SEQ ID NO: 13, VH-CDR2 of SEQ ID NO: 14 and VH-CDR3 of SEQ ID NO: 15 and the variable region of the light chain comprises at least one of VL-CDR l.
  • SEQ ID NO: 19 as set forth in SEQ ID NO: 19; SEQ ID NO: 22; SEQ ID NO: 25; SEQ ID NO: 28; or SEQ ID NO: 31; at least one of VL-CDR2 as set forth in SEQ ID NO: 20; SEQ ID NO: 23; SEQ ID NO: 26; SEQ ID NO: 29; or SEQ ID NO: 32 and at least one of VL-CDR3 as set forth in SEQ ID NO: 21 ; SEQ ID NO: 24; SEQ ID NO: 27; SEQ ID NO: 30; or SEQ ID NO: 33.
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
  • VL-CDR2 GASRLQT (SEQ ID NO: 20);
  • VL-CDR3 QQYDSLPVT (SEQ ID NO: 2 1 ).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
  • VL-CDRl QASQSIVSYLA (SEQ ID NO: 22); VL-CDR2: GASRLQT (SEQ ID NO: 23); and
  • VL-CDR3 QQYASAPVT (SEQ ID NO: 24).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
  • VL-CDRl QASQSISSYLA (SEQ ID NO: 25);
  • VL-CDR2 GTSRLKT (SEQ ID NO: 26);
  • VL-CDR3 QQYYSAPVT (SEQ ID NO: 27).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
  • VL-CDRl QASQTISSFLA (SEQ ID NO: 28);
  • VL-CDR2 RASIPQT (SEQ ID NO: 29);
  • VL-CDR3 QQYVSAPPT (SEQ ID NO: 30).
  • Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
  • VL-CDRl QASQSISSYLA (SEQ ID NO: 31);
  • VL-CDR2 GASRLKT (SEQ ID NO: 32);
  • VL-CDR3 QQYASVPVT (SEQ ID NO: 33).
  • the anti-hGARP antibody or antigen binding fragment thereof may comprise the CHI domain, hinge region, CH2 domain and CH3 domain of a human antibody, in particular IgGl, IgG2, IgG3 or IgG4.
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR 1 GFSLTGYGIN (SEQ ID NO: 2), VH-CDR2 MIWSDGSTDYNSVLTS (SEQ ID NO: 3) and VH-CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR 1 GYGIN (SEQ ID NO: 52), VH-CDR2 MIWSDGS ' l DYNSVLTS (SEQ ID NO: 3) and VH- CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 KASDHIKNWLA (SEQ ID NO: 5), VL-CDR2 GATSLEA (SEQ ID NO: 6) and VL-CDR3 QQYWSTPWT (SEQ ID NO: 7).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR1 SYYID (SEQ ID NO: 13), VH-CDR2 RIDPEDGGTKYAQKFQG (SEQ I D NO: 14) and VH-CDR3 NEWETVVVGDLMYEYEY ( SEQ ID NO: 15).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR I QASQXil X 2 SX 3 LA (SEQ ID NO: 16), wherein Xi is S or T, X 2 is S or V, X 3 is Y or F; VL-CDR2 XiX 2 SX 3 X 4 X 5 T ( SEQ ID NO: 17), wherein X] is G or R; X 2 is A or T; X 3 is R or I; X 4 is L or P; X 5 is Q or K; and VL-CDR3 QQYX 1 SX 2 PX 3 T, wherein Xi is D, A, Y or V; X 2 is A, L or V; X 3 is V or P (SEQ ID NO: 18).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the follow ing CDRs: VL-CDR 1 QASQSISSYLA ( SEQ ID NO: 19), VL-CDR2 GASRLQT ( SEQ ID NO: 20), and VL-CDR3 QQYDSLPVT ( SEQ ID NO: 2 1 ).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 QASQSIVSYLA (SEQ I D NO: 22); VL-CDR2 GASRLQT (SEQ ID NO: 23); and VL-CDR3 : QQYASAPVT (SEQ ID NO: 24).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 QASQSISSYLA (SEQ ID NO: 25); VL-CDR2 GTSRLKT (SEQ ID NO: 26); and VL-CDR3 QQYYSAPVT (SEQ ID NO: 27).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR1 QASQTISSFLA (SEQ ID NO: 28); VL-CDR2 RASIPQT (SEQ ID NO: 29); and VL-CDR3 QQYVSAPPT (SEQ ID NO: 30).
  • the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR I QASQSISSYLA (SEQ ID NO: 31); VL-CDR2 GASRLKT (SEQ ID NO: 32); and VL-CDR3 QQY ASVPVT (SEQ ID NO: 33).
  • any of the CDRs 1, 2 and 3 of the heavy and light chains may be characterized as having an amino acid sequence that shares at least 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with the particular CDR or sets of CDRs listed in the corresponding SEQ ID NO.
  • the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having:
  • the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having: (i) the heavy chain CDR 1 , 2 and 3 (VH-CDR1 , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ I D NO: 52, 3 and 4; and
  • the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having:
  • the anti-hGARP antibody or antigen binding fragment thereof comprises:
  • the anti-hGARP antibody or antigen binding fragment thereof comprises:
  • the anti-hGARP antibody or antigen binding fragment thereof comprises: (i) the heavy chain CDR 1, 2 and 3 (VH-CDR I , VH-CDR2, VH-CDR3) amino acid sequences as shown in SEQ ID NO: 13, 14 and 15; and
  • the anti-hGARP antibody or antigen binding fragment thereof comprises:
  • the anti-hGARP antibody or antigen binding fragment thereof comprises:
  • the anti-hGARP antibody or antigen binding fragment thereof comprises a variable heavy chain CDR3 comprising an amino acid sequence of SEQ ID NO: 4 ( DRN Y YD YDG AMD Y ), or sequence variant thereof, wherein the sequence variant comprises one, two or three amino acid substitutions in the recited sequence.
  • the anti-hGARP antibody or antigen binding fragment thereof comprises a variable heavy chain CDR3 comprising an amino acid sequence of SEQ I D NO: 15, or sequence variant thereof, wherein the sequence variant comprises one, two or three amino acid substitutions in the recited sequence.
  • Another object of the invention is the anti-hGARP antibody MHGARP8 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 8 and a light chain variable region of sequence SEQ ID NO: 9.
  • Another object of the invention is the anti-hGARP antibody MHGARP8 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 50 and a light chain variable region of sequence SEQ ID NO: 51, wherein SEQ ID NO: 50 and SEQ ID NO: 51 correspond, respectively, to SEQ ID NO: 8 and SEQ ID NO: 9 wherein the signal peptide sequences were removed.
  • Another object of the invention is the anti-hG ARP antibody LHG I 0 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 35.
  • VGDLMYEYEYWGQGTQVTVSS (SEQ ID NO: 34).
  • DIQMTQSPTSLSASLGDRVTITCQASQSISSYLAWYQQKPGQAPKLLIYGASRLQ TG SRPSGSGSGTSFTLTISGLEAEDAGTY ⁇ YCQQY ' DSLPVTFGQGTKVELK (SEQ ID NO: 35).
  • Another object of the invention is the anti-hGARP antibody LHG I 0.3 or antigen binding fragment thereof comprising a heavy chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 36.
  • Another object of the inv ention is the anti-hGARP antibody LHG I O.4 or antigen binding fragment thereof comprising a heav y chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 37.
  • Another object of the inv ention is the anti-hGARP antibody LHG I 0.5 or antigen binding fragment thereof comprising a heav y chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 38.
  • Another object of the invention is the anti-hGARP antibody LHG10.6 thereof comprising a heavy chain variable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 39.
  • amino acids of the heavy chain or light chain variable regions as described here above may be substituted by a different amino acid.
  • an antibody of the invention comprises heavy and light chain variable regions comprising amino acid sequences that are homologous to the amino acid sequences of the MHGARP8 antibody described herein, wherein the antibodies retain the desired functional properties of the protein of the invention.
  • sequence of the heavy chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 8 or with
  • sequence of light chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 9 or with SEQ ID NO: 51.
  • an antibody of the invention comprises heavy and light chain variable regions comprising amino acid sequences that are homologous to the amino acid sequences of the LUG 10 antibody described herein, and wherein the antibodies retain the desired functional properties of the protein of the invention.
  • sequence of the heavy chain variable region of an anti-hG ARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 34.
  • the sequence of light chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 35; 36; 37; 38 or 3 .
  • the specified variable region and CDR sequences may comprise conservative sequence modifications.
  • Conservative sequence modifications refer to amino acid modifications that do not significantly affect or alter the binding characteristics of the antibody containing the amino acid sequence. Such conservative modifications include amino acid substitutions, additions and deletions.
  • Modifications can be introduced into an antibody of the invention by standard techniques known in the art, such as site-directed mutagenesis and PCR-mediated mutagenesis.
  • Conservative amino acid substitutions are typically those in which an amino acid residue is replaced with an amino acid residue having a side chain with similar physicochemical properties.
  • Specified variable region and CDR sequences may comprise one, two, three, four or more amino acid insertions, deletions or substitutions. Where substitutions are made, preferred substitutions ill be conservative modifications. Families of amino acid residues having simi lar side chains have been defined in the art. These fami lies include amino acids with basic side chains (e.g., lysine, arginine, histidine), acidic side chains (e.g.
  • aspartic acid, glutamic acid uncharged polar side chains (e.g. glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine, tryptophan), nonpolar side chains (e.g. , alanine, valine, leucine, isoleucine, proline, phenylalanine, methionine), beta-branched side chains (e.g. threonine, valine, isoleucine) and aromatic side chains (e.g. , tyrosine, phenylalanine, tryptophan, histidine).
  • uncharged polar side chains e.g. glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine, tryptophan
  • nonpolar side chains e.g. , alanine, valine, leucine, isoleucine, proline, phenylalanine, methi
  • anti-hGARP antibodies may also be CDR-grafted antibodies in which the CDRs are derived from a camelid antibody, for example a camelid anti-hGARP antibody raised by active immunization with liGARP.
  • the invention provides an antibody that binds essentially the same epitope as the MI IGARP8 or LHG10 antibody.
  • anti-hGARP antibodies comprising VH and VL domains, or CDRs thereof may comprise CHI domains and/or CL domains, the amino acid sequence of which is fully or substantially human.
  • the antigen binding polypeptide of the invention is an antibody intended for human therapeutic use, it is typical for the entire constant region of the antibody, or at least a part thereof, to have a fully or substantially human amino acid sequence. Therefore, one or more or any combination of the CHI domain, hinge region, CH2 domain, CHS domain and CL domain (and CH4 domain if present) may be fully or substantially human with respect to its amino acid sequence.
  • the CHI domain, hinge region, CH2 domain, CHS domain and CL domain may all have a fully or substantially human amino acid sequence.
  • substantially human refers to an amino acid sequence identity of at least 90%, or at least 95%, or at least 97%, or at least 99% with a human constant region.
  • human amino acid sequence in this context refers to an amino acid sequence which is encoded by a human immunoglobulin gene, which includes germline, rearranged and somatically mutated genes.
  • the invention also contemplates polypeptides comprising constant domains of ' " human " sequence which have been altered, by one or more amino acid additions, deletions or substitutions with respect to the human sequence, excepting those embodiments where the presence of a "fully human " hinge region is expressly required.
  • the presence of a ""fully human " hinge region in the anti-hGARP antibodies of the invention may be beneficial both to minimize immunogenicity and to optimize stability of the antibody. It is considered that one or more amino acid substitutions, insertions or deletions may be made within the constant region of the heavy and/or the light chain, particularly within the Fc region. Amino acid substitutions may result in replacement of the substituted amino acid with a different naturally occurring amino acid, or with a non-natural or modified amino acid.
  • a GARP antibody can be engineered which has dual Fc regions and may thereby have enhanced complement lysis and ADCC capabilities. See Stevenson et al., Anti-Cancer Drug Design 3 :219-230 (1989).
  • the invention also contemplates immunoconjugates comprising an antibody as described herein conjugated to a cytotoxic agent such as a chemotherapeutic agent, toxin (e.g. , an enzymatically active toxin of bacterial, fungal, plant or animal origin, or fragments thereof), or a radioactive isotope (i.e., a radioconjugate).
  • a cytotoxic agent such as a chemotherapeutic agent, toxin (e.g. , an enzymatically active toxin of bacterial, fungal, plant or animal origin, or fragments thereof), or a radioactive isotope (i.e., a radioconjugate).
  • Fc regions may also be engineered for half-life extension, as described by Chan and Carter, 2010 Nature Reviews: Immunology, 10:301 -316, incorporated herein by reference.
  • Variant anti- hGARP antibodies in which the Fc region is modified by protein engineering, as described herein may also exhibit an improvement in efficacy (e.g. in therapeutics/diagnostics), as compared to an equivalent antibody (i.e. equivalent antigen-binding properties) without the Fc modification.
  • the Fc region is modified to increase the abilitv of the antibody to mediate antibody dependent cellular cytotoxicity ( ADCC ) and/or to increase the affinity of the antibody for an Fey receptor by modifying one or more amino acids.
  • the glycosylation of an antibody is modified.
  • an aglycoslated antibody can be made (i.e. , the antibody lacks glycosylation).
  • Glycosylation can be altered to, for example, increase the affinity of the antibody for the GARP target antigen.
  • Such carbohydrate modifications can be accomplished by; for example, altering one or more sites of glycosylation within the antibody sequence.
  • one or more amino acid substitutions can be made that result in elimination of one or more variable region framework glycosylation sites to thereby eliminate glycosylation at that site.
  • Such aglycosylation may increase the affinity of the antibody for antigen.
  • variant anti-hGARP antibodies having an altered type of glycosylation, such as a hypofucosylated antibody having reduced amounts of fucosyl residues or a non-fucosylated antibody (as described by Natsume et al., 2009 Drug Design Development and Therapy, 3 : 7- 16) or an antibody having increased bisecting GlcNac structures.
  • Such altered glycosylation patterns have been demonstrated to increase the ADCC activity of antibodies, producing typically 10-fold enhancement of ADCC relative to an equivalent antibody comprising a "native " human Fc domain.
  • Such carbohydrate modifications can be accomplished by, for example, expressing the antibody in a host cell with altered glycosylation enzymatic machinery (as described by Yamane-Ohnuki and Satoh, 2009 mAbs l(3):230-236).
  • the anti-hGARP antibody comprises an Fc region having the sequence SEQ ID NO: 47.
  • the anti-hGARP antibody comprises the heavy chain constant domain region having the sequence SEQ ID NO: 48, wherein X is N or is mutated into Q to inhibit ADCC.
  • the residue 297 of SEQ ID NO: 48 is aglycosylated.
  • the N residue at the position 297 of SEQ ID NO: 48 is mutated into Q.
  • the anti-hG ARP antibody comprises the light chain constant domain region having the sequence SEQ ID NO: 49.
  • anti-hGARP antibodies may be lacking effector function, either because the Fc region of the antibody is of an isotype which naturally lacks effector function, or which exhibits significantly less potent effector function than human IgGl, for example human IgG2 or human IgG4, or because the Fc region of the antibody has been engineered to reduce or substantially eliminate effector function, as described in Armour KL, et al., Eur. J. Immunol , 1999, 29:2613-2624.
  • the Fc region of the anti-hG ARP antibody may be engineered to facilitate the preferential formation of bispecific antibodies, in which two antibody heavy chains comprising different variable domains pair to form the Fc region of the bispecific antibody.
  • the anti-hGARP antibody of the invention may exhibit one or more effector functions selected from antibody-dependent cel l-mediated cytotoxicity (ADCC), complement dependent cytotoxicity (CDC) and antibody-dependent cell-mediated phagocytosis (ADCP) against cells expressing human GARP protein on the cell surface.
  • the antibody may exhibit ADCC against GARP-related dysfunctional cells.
  • the antibody may exhibit enhanced ADCC function in comparison to a reference antibody w hich is an equivalent antibody comprising a native human Fc domain.
  • the ADCC function may be at least lOx enhanced in comparison to the reference antibody comprising a native human Fc domain.
  • the antibody with enhanced ADCC function displays substantially identical antigen-binding specificity and/or shares identical amino acid sequence with the reference antibody, except for any modifications made (relative to native human Fc) for the purposes of enhancing ADCC.
  • the antibody may contain the hinge region, CHI domain, CH2 domain and C B domain of a human IgG, most preferably human IgGl .
  • the antibody may include modifications in the Fc region, such as for example substitutions, deletions or insertion or other structural modifications to enhance or reduce Fc-dependent functionalities.
  • One object of this invention relates to anti-hGARP antibodies or antigen binding fragment thereof which inhibit TGF- ⁇ signaling, and that may be particularly suitable for therapeutic applications which benefit from antibody effector function, i.e. ADCC, CDC, ADCP, and in particular enhanced effector function.
  • the GARP antibodies described herein which exhibit effector function (or enhanced effector function) and which inhibit TGF- ⁇ may be particularly advantageous for certain therapeutic applications, e.g. cancer, chronic infection, and fibrosis treatments which benefit from antibody effector function.
  • Another object of the invention is an isolated polynucleotide sequence encoding the heavy chain variable region of sequence SEQ ID NO: 8 or of SEQ ID NO: 50.
  • said nucleic sequence is SEQ ID NO: 10:
  • Another object of the invention is an isolated polynucleotide sequence encoding the light chain variable region of sequence SEQ ID NO: 9 or of SEQ ID NO: 51.
  • said nucleic sequence is SEQ ID NO: 11 :
  • Another object of the invention is an expression vector comprising the nucleic sequences encoding the anti-hGARP antibody of the invention, in an embodiment, the expression vector of the invention comprises at least one of SEQ ID NO: 10 and SEQ ID NO: 11 or any sequence having a nucleic acid sequence that shares at least: 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with said SEQ ID NO : 10 and SEQ ID NO : 1 1.
  • host cells may be prokaryotic, yeast, or eukaryotic cells, and are preferably mammalian cells, such as, for example: monkey kidney CVl line transformed by SV40 (COS-7, ATCC CRL 1651); human embryonic kidney line (293 or 293 cells subcloned for growth in suspension culture, Graham et a!., J. Gen. Virol. 36:59 (1977)); baby hamster kidney cells (BHK, ATCC CCL 10); Chinese hamster ovary cells/-DHFR (CHQ, Urlaub et al., Proc. Natl.
  • COS-7 monkey kidney CVl line transformed by SV40
  • human embryonic kidney line (293 or 293 cells subcloned for growth in suspension culture, Graham et a!., J. Gen. Virol. 36:59 (1977)
  • baby hamster kidney cells BHK, ATCC CCL 10
  • Chinese hamster ovary cells/-DHFR CHQ, Urlaub et al., Proc. Natl.
  • mice Sertoli cells TM4, Mather, Biol. Reprod. 23 :243-25 I (1980)
  • mouse myeloma cells SP2/0-AG14 ATCC CRL 1581 ; ATCC CRL 8287
  • NSO HP A culture collections no.
  • monkey kidney cells (CVl ATCC CCL 70); African green monkey kidney cells (VERO-76, ATCC CRL- 1 587); human cervical carcinoma cells (HELA, ATCC CCL 2); canine kidney cells (MDCK, ATCC CCL 34); buffalo rat fiver cells (BRL 3A, ATCC CRL 1442); human lung ceils (W138, ATCC CCL 75); human liver cells (Hep G2, HB 8065); mouse mammary tumor (MMT 060562, ATCC CCL 5 1 ); TRI cells (Mather et al, Annals N.Y. Acad. Sci.
  • host cell generally refers to a cultured cell line. Whole human beings into which an expression vector encoding an antigen binding polypeptide according to the invention has been introduced are explicitly excluded from the definition of a "host cell”.
  • Another object of the invention is a method of producing an anti-hGARP antibody or antigen binding fragment thereof which comprises culturing host cells containing the isolated polynucleotide sequence encoding the anti-hGARP antibody under conditions suitable for expression of the anti-hGARP antibody, and recovering the expressed anti- hGARP antibody.
  • This recombinant process can be used for large scale production of GARP antibodies according to the invention, including antibodies monoclonal antibodies intended for in vitro, ex vivo, in vivo therapeutic, diagnostic uses. These processes are available in the art and will be known by the skilled person.
  • Another object of the invention is a hybridoma cell line which can be used to produce said antibody of the invention.
  • a preferred hybridoma cell line according to the invention was deposited with the BCCM/LMBP Plasmid Collection, Department of Biomedical Molecular Biology, Ghent University, Tiers-Schell-Van Montagu' building, Technologiepark 927, B-9052 Gent - Zwijnaarde BELGIUM (Table 2):
  • Fragments and derivatives of antibodies of this invention (which are encompassed by the term “antibody “ or “antibodies “ as used in thi s application, unless otherwise stated or clearly contradicted by context), preferably a MHGARP8-like antibody, can be produced by techniques that are known in the art. "Fragments " comprise a region of the intact antibody, generally the antigen binding site or variable region.
  • antibody fragments include Fab, Fab', Fab'-SH, F(ab')2, and Fv fragments; diabodies; any antibody fragment that is a polypeptide having a primary structure consisting of one uninterrupted sequence of contiguous amino acid residues (referred to herein as a "single-chain antibody fragment” or “single chain polypeptide"), including without limitation (1) single-chain Fv molecules (2) single chain polypeptides containing only one light chain variable domain, or a fragment thereof that contains the three CDRs of the light chain variable domain, without an associated heavy chain moiety and (3) single chain polypeptides containing only one heavy chain variable region, or a fragment thereof containing the three CDRs of the heavy chain variable region, without an associated light chain moiety; and multi-specific antibodies formed from antibody fragments.
  • single-chain antibody fragment single chain polypeptides containing only one light chain variable domain, or a fragment thereof that contains the three CDRs of the light chain variable domain, without an associated heavy chain moiety
  • Fragments of the present antibodies can be obtained using standard methods. For instance, Fab or F(ab')2 fragments may be produced by protease digestion of the isolated antibodies, according to conventional techniques. It will be appreciated that immune-reactive fragments can be modified using known methods, for example to slow clearance in vivo and obtain a more desirable pharmacokinetic profile the fragment may be modified with polyethylene glycol (PEG). Methods for coupling and site-specifically conjugating PEG to a Fab " fragment are described in, for example, Leong et al. Cytokines 16 (3): 106- 1 19 (2001) and Delgado et al, Br J. Cancer 73 (2): 1 75- 1 82 (1 996), the disclosures of which are incorporated herein by reference.
  • PEG polyethylene glycol
  • the DNA of a hybridoma producing an antibody of the invention may be modified so as to encode a fragment of the invention.
  • the modified DNA is then inserted into an expression vector and used to transform or transfect an appropriate cell, which then expresses the desired fragment.
  • the DNA of a hybridoma producing an antibody of this invention can be modified prior to insertion into an expression vector, for example, by substituting the coding sequence for human heavy- and light- chain constant domains in place of the homologous non- human sequences ⁇ e.g. , Morrison et al., PNAS pp. 6851 ( 1 84 )), or by covalently joining to the immunoglobulin coding sequence all or part of the coding sequence for a non-immunoglobulin polypeptide.
  • “chimeric " or "hybrid " antibodies may be prepared that have the binding specificity of the original antibody.
  • such non-immunoglobulin polypeptides are substituted for the constant domains of an antibody of the invention.
  • the antibody of this invention preferably a MHGARP8 or LUG 1 0-like antibody
  • "Humanized” forms of antibodies according to this invention are speci ic chimeric immunoglobulins, immunoglobulin chains or fragments thereof (such as Fv, Fab, Fab', F(ab ' )2, or other antigen-binding subsequences of antibodies) which contain minimal sequence derived from the murine immunoglobulin .
  • humanized antibodies are human immunoglobulins (recipient antibody) in which residues from a complementary-determining region (CDR) of the recipient are replaced by residues from a CDR of the original antibody (donor antibody) while maintaining the desired specificity, affinity, and capacity of the original antibody.
  • CDR complementary-determining region
  • Fv framework ( FR) residues of the human immunoglobulin may be replaced by corresponding non-human residues.
  • humanized antibodies can comprise residues that are not found in either the recipient antibody or in the imported CDR or framework sequences. These modifications are made to further refine and optimize antibody performance.
  • the humanized antibody will comprise substantially all of at least one, and typically two, variable domains, in which all or substantial ly all of the CDR regions correspond to those of the original antibody and al l or substantially all of the FR regions are those of a human immunoglobulin consensus sequence.
  • the humanized antibody optimally also will comprise at least a region of an immunoglobulin constant region (Fc), typically that of a human immunoglobulin.
  • variable domains both light and heavy
  • sequence of the variable domain of an antibody of this invention is screened against the entire library of known human variable-domain sequences.
  • the human sequence that is closed to the mouse sequence is then accepted as the human framework (FR) for the humanized antibody (Sims et al., J. Immunol. 151 , pp. 2296 (1993); Chothia and Lesk, J. Mol. Biol. 196, pp. 901).
  • Another method uses a particular framework from the consensus sequence of all human antibodies of a particular subgroup of light or heavy chains.
  • humanized antibodies are prepared by a process of analysis of the parental sequences and various conceptual humanized products using three-dimensional models of the parental and humanized sequences. Three-dimensional immunoglobulin models are commonly avai lable and are familiar to those skilled in the art. Computer programs are available which illustrate and display probable three-dimensional structures of selected candidate immunoglobulin sequences.
  • a XenoMouse is a murine host according to this invention that has had its immunoglobulin genes replaced by functional human immunoglobulin genes.
  • antibodies produced by this mouse or in hybridomas made from the B cells of this mouse are already humanized.
  • the XenoMouse is described in United States Patent No 6, 162,963, which is herein incorporated in its entirety by reference.
  • Human antibodies may also be produced according to various other techniques, such as by using, for immunization, other transgenic animals that have been engineered to express a human antibody repertoire (Jakobovitz et al. Nature 362 (1993) 255), or by selection of antibody repertoires using phage display methods.
  • Camehdae hypervariable loops may be obtained by active immunization of a species in the familv Camehdae with a desired target antigen.
  • Camehdae either the native animal or a transgenic animal engineered to express the immunoglobulin repertoire of a camelid species
  • B cells producing (conventional Camehdae) antibodies having specificity for the desired antigen can be identified and polynucleotide encoding the VH and VL domains of such antibodies can be isolated using known techniques.
  • the invention provides a recombinant antigen binding polypeptide immunoreactive with a target antigen, the polypeptide comprising a VH domain and a VL domain, wherein at least one hypervariable loop or complementarity determining region in the VH domain or the VL domain is obtained from a VH or VL domain of a species in the family Camehdae, which antigen binding polypeptide is obtainable by a process comprising the steps of:
  • substitutions, insertions or deletions may be present in the framework regions of the VH domain and/or the VL domain.
  • the purpose of such changes in primary amino acid sequence may be to reduce presumably unfavourable properties (e.g. immunogenicity in a human host (so-called humanization), sites of potential product heterogeneity and or instability (glycosylation, deamidation, isomerization, etc. ) or to enhance some other favourable property of the molecule (e.g. solubi lity, stability, bioavailability, etc. ).
  • changes in primary amino acid sequence can be engineered in one or more of the hypervariable loops (or CDRs) of a Camelidae VH and/or VL domain obtained by active immunization.
  • Such changes may be introduced in order to enhance antigen binding affinity and/or specificity, or to reduce presumably unfavourable properties, e.g. immunogenicity in a human host (so-called humanization), sites of potential product heterogeneity and or instability, glycosylation, deamidation, isomerization, etc., or to enhance some other favourable property of the molecule, e.g. solubility, stability, bioavailabi lity, etc.
  • the antibodies of the present invention may also be derivatized to "chimeric" antibodies (immunoglobulins) in which a region of the heavy/light chain(s) is identical with or homologous to corresponding sequences in the original antibody, while the remainder of the chain( s) is identical w ith or homologous to corresponding sequences in antibodies derived from another species or belonging to another antibody class or subclass, as well as fragments of such antibodies, so long as they exhibit the desired biological activity and binding specificity (Cabilly et al., supra; Morrison et al., Proc. Natl. Acad. Sci., pp. 685 (1984)).
  • An object of the invention is a composition comprising at least one of the protein of the invention as described here above.
  • Another object of the invention is a pharmaceutical composition
  • a pharmaceutical composition comprising at least one of the protein of the invention as described here above and a pharmaceutically acceptable excipient.
  • compositions include, but are not limited to, ion exchangers, alumina, aluminum stearate, lecithin, serum proteins, such as human serum albumin, buffer substances such as phosphates, glycine, sorbic acid, potassium sorbate, partial glyceride mixtures of saturated vegetable fatty acids, water, salts or electrolytes, such as protamine sulfate, di sodium hydrogen phosphate, potassium hydrogen phosphate, sodium chloride, zinc salts, colloidal silica, magnesium trisilicate, polyvinyl pyrrolidone, cellulose-based substances (for example sodium carboxymethylcellulose), polyethylene glycol, polyacrylates, waxes, polyethylene- polyoxypropylene- block polymers, polyethylene glycol and wool fat.
  • ion exchangers alumina, aluminum stearate, lecithin
  • serum proteins such as human serum albumin
  • buffer substances such as phosphates, glycine, sorbic acid, potassium sorbate, partial g
  • Another object of the invention is the protein of the invention for inhibiting TGF-B activity in a subject in need thereof.
  • Another object of the invention is a method for inhibiting TGF-B activity in a subject in need thereof, comprising administering to the subject an effective amount of the protein of the invention.
  • Another object of the invention is the protein of the invention or the pharmaceutical composition as defined here above for treating a TGF-B-related disorder in a subject in need thereof.
  • Another object of the invention is a method for treating a TGF-B-related disorder in a subject in need thereof, comprising administering to the subject an effective amount of the protein of the invention.
  • TGF-B-related disorders include, but are not limited to, inflammatory diseases, chronic infection, cancer, fibrosis, cardiovascular diseases, cerebrovascular disease (e.g. ischemic stroke), and neurodegenerative diseases.
  • compositions of the present invention may be administered orally, parenterally, by inhalation spray, topically, rectal ly, nasally, buccally, vaginally or via an implanted reservoir.
  • administration used herein includes subcutaneous, intravenous, intramuscular, intra-articular, intra-synovial, intrasternal, intrathecal, intrahepatic, intralesional and intracranial injection or infusion techniques.
  • Sterile injectable forms of the compositions of this invention may be aqueous or an oleaginous suspension. These suspensions may be formulated according to techniques known in the art using suitable dispersing or wetting agents and suspending agents.
  • the sterile injectable preparation may also be a sterile injectable solution or suspension in a non-toxic parenterally acceptable diluent or solvent.
  • acceptable vehicles and solvents that may be employed are water. Ringer's solution and isotonic sodium chloride solution.
  • sterile, fixed oils are conventionally employed as a solvent or suspending medium. For this purpose, any bland fixed oil may be employed including synthetic mono- or diglycerides.
  • Fatty acids such as oleic acid and its glyceride derivatives are useful in the preparation of injectables, as are natural pharmaceutically acceptable oils, such as olive oil or castor oil, especially in their polyoxyethylated versions.
  • oils such as olive oil or castor oil
  • These oil solutions or suspensions may also contain a long-chain alcohol diluent or dispersant, such as carboxymethyl cellulose or similar dispersing agents that are commonly used in the formulation of pharmaceutically acceptable dosage forms including emulsions and suspensions.
  • Other commonly used surfactants such as T weens.
  • Spans and other emulsifying agents or bioavailability enhancers which are commonly used in the manufacture of pharmaceutically acceptable solid, liquid, or other dosage forms may also be used for the purposes of formulation.
  • an antibody present in a pharmaceutical composition of this invention can be supplied at a concentration of 10 mg/mL in either 100 mg (10 inL) or 500 mg (50 inL) single-use vials.
  • the product is formulated for intravenous (IV) administration in 9.0 mg/mL sodium chloride, 7.35 mg/mL sodium citrate dihydrate, 0.7 in g/niL polysorbate 80, and Sterile Water for Injection. The pH is adjusted to 6.5.
  • Another object of the invention is a method for reducing immunosuppression in the tumor environment in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
  • Another object of the invention is a method for boosting the immune system in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
  • Another object of the invention is a method for inhibiting the immune suppressive function of human Tregs in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
  • Another object of the invention is a method for treating cancer in a subject in need thereof comprising administering to the subject a therapeutically effective amount of the protein of the invention.
  • Another object of the invention is a method for treating cancer in a subject in need thereof, wherein the pharmaceutical composition of the invention is to be administered as an immunostimulatory antibody for treatment of cancer patients.
  • Another object of the invention is a method for treating cancer in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention in combination with another treatment for cancer or an immunotherapeutic agent.
  • Another object of the invention is a combination of the protein of the invention and another treatment for cancer or another immunotherapeutic agent for treating or for use in treating cancer.
  • said immunotherapeutic agent is a tumor vaccine.
  • said i m m u not heraplast i c agent is an i m m u no st i m u 1 at ory antibody.
  • Various cancers can be treated by the present invention such as for an adrenocortical carcinoma, anal cancer, bladder cancer, brain tumor, glioma, breast carcinoma, carcinoid tumor, cervical cancer, colon carcinoma, endometrial cancer, esophageal cancer, extrahepatic bile duct cancer, Ewing' s tumor, extracranial germ cell tumor, eye cancer, gall bladder cancer, gastric cancer, germ cell tumor, gestational trophoblastic tumor, head and neck cancer, hypopharyngeal cancer, islet cell carcinoma, kidney cancer, laryngeal cancer, leukemia, lip and oral cavity cancer, liver cancer, lung cancer, lymphoma, melanoma, mesothelioma, merkel cell carcinoma, metastatic squamous head and neck cancer, myeloma, n
  • Suitable tumor antigens for use as a tumor vaccine known in the art include for example : (a) cancer-testis antigens such as NY-ESO- 1 , SSX2, SCP1 as well as RAGE, BAGE, GAGE and MAGE family polypeptides, for example, GAGE- 1 , GAGE-2, MAGE- 1 , MAGE-2, MAGE-3, MAGE-4, MAGE-5, MAGE-6, and MAGE- 12 (which can be used, for example, to address melanoma, lung, head and neck, NSCLC, breast, gastrointestinal, and bladder tumors), (b) mutated antigens, for example, p53 (associated with various solid tumors, e.g., colorectal, lung, head and neck cancer), p2 1 /Ras (associated with, e.g., melanoma, pancreatic cancer and colorectal cancer), CD 4 (associated with, e.g., melanoma), MUM 1 (associated with,
  • MUC-1 may be coupled to LH); (ii) lipopolypeptides (e.g., MUC-1 linked to a lipid moiety); (iii) polysaccharides (e.g., Globo H synthetic hexasaccharide), which may be coupled to a carrier proteins (e.g., to KLH), (iv) gangliosides such as GM2, GM 12, GD2, GD3 (associated with, e.g., brain, lung cancer, melanoma), which also may be coupled to carrier proteins (e.g. , KLH).
  • LH lipopolypeptides
  • polysaccharides e.g., Globo H synthetic hexasaccharide
  • gangliosides such as GM2, GM 12, GD2, GD3 (associated with, e.g., brain, lung cancer, melanoma), which also may be coupled to carrier proteins (e.g. , KLH).
  • tumor antigens include pi 5, Hom/Mel-40, H-Ras, E2A-PRL, H4-RET, IGH- IGK, MYL- RAR, Epstein Barr vims antigens, EBNA, human papillomavirus (IIPV) antigens, including E6 and E7, hepatitis B and C virus antigens, human T-cell lymphotropic virus antigens, TSP- 180, pl85erbB2, pl80erbB-3, c-met, mn-23H 1, TAG-72-4, CA 19-9, CA 72-4, CAM 17.1 , NuMa, K-ras, p 16, TAGE, PSCA, CT7, 43-9F, 5T4, 791 Tgp72, beta-HCG, BCA225, BTAA, CA 125, CA 15-3 (CA 27.29 ⁇ BCAA), CA 195, CA 242, CA-50, CAM43, CD68VKP1, CO-029, FGF-5, Ga
  • Suitable immunostimulatory antibodies include, but are not limited to: anti-CTLA-4, anti-PD l , anti-PDL 1 and anti- IR antibodies.
  • the method for treating cancer in a subject in need thereof comprises administering to the subject the protein of the invention prior to, concurrent to and/or posterior to another anti-cancer agent or cancer treatment, such as chemotherapy treatment.
  • Another object of the present invention is a method to prevent infectious diseases such as HIV, malaria, or Ebola, or improve vaccination against these infections, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
  • the protein of the invention may be used /// vitro or in vivo to identify samples, tissues, organs or cells that express GARP.
  • assays in which the protein of the invention may be used include, but are not limited to, ELISA, sandwich ELISA, RIA, FACS, tissue immunohistochemistry, Western-blot, and immunoprecipitation.
  • the sample is a biological sample.
  • biological samples include, but are not limited to, bodily fluids, preferably blood, more preferably blood serum, plasma, synovial fluid, bronchoalveolar lavage fluid, sputum, lymph, ascitic fluids, urine, amniotic fluid, peritoneal fluid, cerebrospinal fluid, pleural fluid, pericardial fluid, and alveolar macrophages, tissue lysates and extracts prepared from diseased tissues.
  • bodily fluids preferably blood, more preferably blood serum, plasma, synovial fluid, bronchoalveolar lavage fluid, sputum, lymph, ascitic fluids, urine, amniotic fluid, peritoneal fluid, cerebrospinal fluid, pleural fluid, pericardial fluid, and alveolar macrophages, tissue lysates and extracts prepared from diseased tissues.
  • sample is intended to mean a sample taken from an individual prior to any analysis.
  • the protein of the invention may be labeled for diagnostic or detection purposes.
  • labeled herein is meant that a compound has at least one element, isotope or chemical compounds attached to enable the detection of the compound.
  • labels include, but are not limited to, isotopic labels such as radioactiv e or heavy isotopes; magnetic, electric or thermal labels and colored or luminescent dyes.
  • lanthanide complexes For example: lanthanide complexes, quantum dots, fluorescein, rhodamine, tetramethylrhodamine, eosin, erythrosin, coumarin, methyl-coumarins, pyrene, malachite green, stilbene, Lucifer yellow, cascade blue, texas red, alexa dyes, cy dyes.
  • One object of the invention is a method for identifying activated Tregs in a sample ba sed on the use of the protein of the in vention.
  • Another object of the inv ention is a method for identifying soluble or complexed latent TGF- ⁇ based on the use of the protein of the invention.
  • Another object of the inv ention is a kit comprising at least one protein of the invention.
  • kit any manufacture (e.g., a package or a container) comprising at least one reagent, i.e. for example an antibody, for specifically detecting the expression of GARP.
  • the kit may be promoted, distributed, or sold as a unit for performing the methods of the present invention.
  • any or all of the kit reagents may be provided within containers that protect them from the external env ironment, such as in sealed containers.
  • the kits may also contain a package insert describing the kit and methods for its use.
  • Kits for performing the sandwich EL IS A generally comprise a capture antibody, optionally immobilized on a solid support (e.g., a microtiter plate), and a revelation antibody coupled with a detectable substance, such as, for example HRP, a fluorescent label, a radioisotope, beta-galactosidase, and alkaline phosphatase.
  • a detectable substance such as, for example HRP, a fluorescent label, a radioisotope, beta-galactosidase, and alkaline phosphatase.
  • Example 1 New monoclonal antibodies directed against human GARP (anti-hGARP monoclonals)
  • DBA/2 or Balb/c mice were immunized with murine PIHTR cells transfected with human GARP.
  • Sera from immunized mice were tested for the presence of anti-hGARP antibodies, by screening for binding to hGARP-expressing BW cells by FACS.
  • Splenocytes from mice with high titers of anti-hGARP antibodies were fused to SP2/neo cells.
  • Hybridomas were selected in HA T medium and cloned under limiting dilution.
  • Supernatants of +/- 1600 hybridoma clones were screened by FACS for the presence of antibodies binding to hGARP-expressing BW cells. Thirty-eight clones producing anti-hGARP monoclonal antibodies were identified in this screening.
  • Nine clones were selected and amplified for large scale-production and purification of nine new anti-hGARP monoclonals (MHGARP 1 to 9).
  • MHGARP 1 to 9 bind to murine BW5 147 cells transfected with hGARP, but not to untransfected cells. MHGARP 1 to 9 also bind 293T cells transfected with hGARP and two human T cells lines (clone Th A 2 and Jurkat) transduced w ith a hGARP-encoding lentivirus, but not the corresponding parental cells (not shown). This recognition pattern is identical to that of a commercially avai lable anti-hGARP mAb (clone Plato- 1 ) used here as a positive control. These results show that MHGARP 1 to 9 recognize hGARP on cell surfaces.
  • MHGARP antibodies MUG- 1 to -14 on the figure
  • ThA2 human CD4+ T helper cells, which do not express hGARP
  • ThA2 transduced with hGARP
  • Example 2 MHGARP8. but none of 12 other anti-hGARP monoclonal s. inhibits active TGF- ⁇ production by human Treg ceils
  • a human Treg clone (1E+06 cells/ml) was stimulated in serum-free medium with coated anti-CD3 (1 iig/ml) and soluble anti-CD28 (1 iig/ ' ml) antibodies, in the presence or absence of 20 Lig/ml of an anti-hGARP monoclonal antibody.
  • Thirteen anti-hGARP monoclonals were tested in this assay: the above mentioned nine new monoclonal s (MHGARP 1 to 9), and commercially available antibody clones Plato- 1 (Enzo Life Sciences, catalog No. ALX-804-867), 272G6 (Synaptic Systems, catalog No. 221 1 1 1), 50G 10 (Synaptic Systems, catalog No.
  • hGARP is required for active TGF-B production by TCR- stimulated Treg cells
  • TCR T cell receptor
  • Active TGF-B produced by stimulated Tregs triggers an autocrine signal, which leads to the phosphorylation and activation of SMAD2 and SMAD3 transcription factors.
  • pSMAD2 phosphorylated SMAD2
  • WB Western Blot
  • Example 3 MHGARP8. but not other anti-hGARP mAbs. recognizes a conformational epitope that requires the presence of TGF-13 Mapping the regions recognized by anti-hGARP monoclonals
  • Murine BW5147 T cells were electroporated with plasmids encoding the HA-tagged proteins schematized in Figure 3, part A, corresponding to hGARP, mGARP or mGARP/hGARP chimeras.
  • Stable clones selected in neomycin were stained with biotinylated anti-hGARP antibodies (anti-hGARP 1 to 9) and streptavidin-PE, with the commercial anti-hGARP antibody (clone Plato- 1 ) and a secondary a n t i - m 1 gG 2 b- A F488 , or with an anti-HA antibody and secondary anti-mouse IgG I -AF488. Histograms are gated on live cells.
  • Black histograms show signals on untransfected BW cells, white histograms show signals on BW cells expressing the HA-tagged hGARP, and grey histograms show signals on BW cells expressing HA-tagged mGARP or mGARP/hGARP chimeras.
  • MHGARP8 may recognize an epitope in hGARP that is distinct from the epitopes recognized by the other anti-hGARP mAbs.
  • MHGARP-1 the MHGARP mAbs of the instant application do not recognize murine GARP (mGARP). Plasmids were therefore constructed encoding HA-tagged hGARP, mGARP or hGARP/mGARP chimeras to map the hGARP regions recognized by the mAbs of the instant application.
  • Murine BW cells were transfected and stable clones were derived expressing the HA-tagged proteins (schematically represented in Figure 3). All clones expressed similar levels of HA-tagged protein on the surface, as indicated by similar fluorescence intensities after staining with an anti- HA mAb ( Figure 3, part A).
  • mAbs in the second group (MHGARP-2, -3 and -8) bound to only 1 of the 5 chimeras, and thus recognize an epitope in region 1 0 1 - 14 1 .
  • a third group comprises MHGARP-5, which bound to 2 of the chimeras and therefore recognizes region 14 1 -207.
  • This group probably al o contains MHGARP- 1 , w hich is cross-reactive but bound these 2 chimeras more efficiently than it bound mGARP or the 3 other chimeras.
  • mAbs in the fourth group (MHG.ARP-4 and Plato- 1 ) bound 4 of the 5 chimeras, and thus recognize region 265-333.
  • the anti-hGARP mAbs were grouped into four families of antibodies that recognize four distinct regions of the hGARP protein.
  • MHGARP-8 which displays neutralizing activity, binds to region 10 1 - 14 1 .
  • This region is also recognized by MHGARP-2 and -3, which are not neutralizing. Therefore, the ability to bind region 10 1 - 14 1 is not sufficient to confer neutralizing activity .
  • the epitope recognized by MHGARP8 appears only when hGARP is bound to murine (m) or human (h) TGF-B 1 . This could be due to one of two mechanisms: either the epitope comprises amino-acids from both hGARP and TGF-Bl (mixed conformational epitope), or it comprises amino- acids from hGARP only, but that adopt a different conformation in the presence of TGF- ⁇ 1 (binding-induced conformational epitope).
  • BW cells express murine TGF-Bl, and murine TGF-Bl binds to hGARP ( Figure 3, part B). Therefore, binding of M HGARP8 to BW + hGARP (in the absence of transfected h ' TGF-B 1 ) could be due to recognition of hGARP/niTGF-B 1 complexes.
  • MHGARP-1, -2, -3, -4 and -5 immunoprecipitated GARP as efficiently as the other anti-GARP mAbs, but they did not co-immunoprecipitate TGF-B ( Figure 3, part C, bottom panels).
  • MHGARP- 1 , -2, -3, -4 and -5 recognize free GARP, but not GARP that is bound to TGF-B.
  • MHGARP-2 and -3 which require the GARPioi-141 region for binding, recognize only free GARP, whereas neutralizing MHGAR 8, which also requires GARPnn-m , recognizes GAR bound to TGF-B.
  • Binding of MHGARP-6, -7, and -9 was not modified by co-transfection of hTGFBl, indicating that these niAbs bind hGARP whether or not it is bound to TGF-B 1 (i.e. they bind both free GARP and GARP bound to TGF-B 1).
  • binding of MHGARP8 increased dose-dependently when hTGFBl was co-transfected with hGARP. This suggests again that in contrast to all other antibodies, MHGARP8 does not bind free GARP, but only GARP bound to TGF-B 1.
  • siRNAs were used to silence the expression of TGFBl in Jurkat cells transduced with hGARP ( Figure 3, part E).
  • the siRNA against TGFBl mRNA efficiently reduced expression of TGF-B 1, as illustrated by the decrease in surface LAP detected on Jurkat ; hGARP cells ( Figure 3, part E, right panel).
  • Reduced expression of TGF-B 1 in Jurkat+hGARP decreased the binding of the MHGARP8 antibody, but it did not modify the binding of the other anti-GARP antibodies ( Figure 3, part E, foreground histograms). This confirms that in contrast to the other anti-GARP antibodies, MHGARP8, does not bind free GARP, but only binds GARP in the presence of TGF-B I .
  • Transfected cells were analyzed by FACS to measure binding of the MHGARP8 antibody, and presentation of hTGF-Bl on the cell surface with an anti- liLAP antibody (Figure 4).
  • transfection of hGARP, mGARP or hGARP/mGARP constructs alone induced low levels of surface L AP, due to low levels of endogenous hTGFB l expression ( Figure 4, part A, left).
  • Surface LAP levels dramatically increased upon transfection of hTGFB l in cells transfected with liGARP, mGARP, or any liG A RP/mG A RP contruct ( Figure 4, part B, left histogram).
  • hTGF-Bl is presented on the cell surface by hGARP, by mGARP and by all the hGARP/mGARP chimeras.
  • M1IGARP8 bound only to the surface of cells transfected with hGARP, or with the hGARP/mGARP constructs encoding amino-acids 101 to 14 1 of hG ARP ( Figure 4, part A B, right).
  • MHGARP8 does not bind mGARP. Its binding to hGARP requires a region comprising amino-acids 101 to 141.
  • region 10 1 - 14 1 in human and murine GARP were compared. In this region, only 13 amino-acids differ between hGARP and mGARP ( Figure 5, amino-acids highlighted by grey boxes).
  • Three HA-tagged mutant forms of hGARP were constructed. In each mutant (Mut I, Mut II and Mut III), three consecutive amino-acids were replaced by the corresponding amino-acids of the mG ARP protein ( Figure 5, black boxes).
  • Stable clones of BW cells transfected with these HA-tagged forms of wild type (WT) or mutant hGARP were derived. All clones expressed similar levels of HA-tagged protein on the surface, as demonstrated by staining with an anti- HA antibody ( Figure 5, histograms on the right). The clones were then analyzed after staining with MHGARP-2, -3 and -8, i.e. , antibodies which require region 101 -141 of hGARP for binding. The three antibodies bound to cells expressing WT, Mut I and Mut II forms of hGARP.
  • MHGARP8 is the only available anti-GARP antibody that inhibits active TGF-Bl production by human Tregs.
  • binding of MHGARP8 requires both region 101-141 of hGARP and the presence of hTGF-B, whereas binding of non-neutralizing antibodies require other regions of hGARP (for MHGARP- 1 , -4, -5, -6, -7 and -9), or occurs only in the absence of TGF-Bl (for MHGARP-2 and -3).
  • region hGARP 101-141 amino- acids 137 to 139 are required for the binding of MHGARP-2, -3 and -8.
  • the affinity of the MHGARP8 antibody to immobilized shGARP-TGFp was measured by BIACOR analysis.
  • the Kd of said antibody is 0.2 ii .
  • Example 4 MHGARP8 inhibits human Treg cell function in vivo
  • MHGARP8 also inhibits human Tregs /// vivo
  • a model of xenogeneic GvHD induced by transfer of human PBMCs (Peripheral Blood Mononuclear Cells) into immuno-compromised NO D-S i - 1 L 2 Rg " " (NSG) mice was used.
  • SG mice lack functional T, B and NK cells. This allows efficient engraftment of human hematopoietic stem cells (FISCs), which proliferate and generate a functional human immune system in recipient mice.
  • FISCs human hematopoietic stem cells
  • GvHD xenogeneic Graft-versus-Host Disease
  • PBMCs Human PBMCs were isolated from total blood of a hemochromatosis donor by centrifugation on density gradients ( Ly mphoprepTM ), and frozen for later use.
  • Autologous Tregs were generated as follows: CD4+ T cells were isolated from the blood of the same donor using the RosetteSepTM Human CD4+ T Cell Enrichment Cocktail (StemCell Technologies) and stained with anti-CD4, anti-CD25 and anti- CD 127 antibodies coupled to fluorochronies.
  • CD4+CD25hiCD1271o cells were sorted by flow cytometry (>99% purity) then stimulated with anti-CD3/CD28 coated beads (Dynabeads® Human T-Activator CD3/CD28 for T-Cell Expansion and Activation, Life Technologies) in the presence of IL-2 (120 lU/ml) during 14 days. These expanded Treg cells were frozen for later use. NSG mice were irradiated (2.5 Gy) on day -1, then injected in the tail vein with human PBMCs (2.7x106 per mouse) alone, or mixed with expanded human Tregs (1.4x106 per mouse) on day 0. Mice also received weekly i.p.
  • MHGARP8 antibody 400 ,ug on day -1 (day minus 1), 200 iig at later time points), or control PBS. Mice were monitored bi-weekly for GvHD development as indicated in the text. Human PBMCs ith or without Tregs were transferred into NSG mice, and the mice were treated with i.p. injections of MHGARP8 antibody or control PBS. The large number of human Treg ceils required for the transfers were obtained through short in vitro amplification of CD4+CD25+CD1271o cells sorted from human PBMCs by flow cytometry. Objective signs of GvHD dev elopment in the recipient mice were monitored bi-weekly. We performed two independent experiments, which yielded similar results.
  • Example 5 New anti-hGARP monoclonal antibodies (mAbs) using Immunization of llamas approach Production of recombinant soluble GARP-TG Fp i complex
  • Human and murine GARP-TGFpl complex was produced as a soluble complex using a truncated GARP expression construct.
  • the human GARP protein sequence was truncated after Leucine 628, followed by a cleavable TEV-3x strep tag (EAAENLYFQGAAWSHPQFEKGAAWSHPQFEKGAAWSHPQFEKGAA*)
  • Murine GARP protein sequence was tmncated after leucine 629, followed by the same cleavable TEV-3x strep tag.
  • the GARP-TGFf] 1 complexes were produced by co-expression of the truncated GARP and the ⁇ ⁇ in HEK293E cells, followed by purification via the Strep-Tag.
  • RNA yields of 450 ⁇ g were achieved, which was used for random cDNA synthesis and PGR amplification of the V-regions of the heavy and the light chains ( ⁇ and VK) for construction of the Fab containing phagemid libraries as described by De Haard H et al., (J Biol Chem. 1999 Jun 25; 274(26): 18218-30), to obtain diverse libraries of good diversity (l -7x l0 8 ).
  • the immune response to the GARP-TGF ⁇ ⁇ complex was investigated by ELISA on coated recombinant soluble GARP-TGF ⁇ ⁇ complex (l ⁇ ig/ml).
  • Five-fold serial dilutions of sera, starting from 10% sera were prepared and 100 ⁇ of diluted sera was added onto the coated wells and incubated for 1 hour at RT. After washing with 3 x PBS/Tween, the plates were blocked with PBS supplemented with 1% casein ( Figure 8). Binding of conventional llama IgG I to its target GARP-TGF was measured in ELISA using a mouse anti llama IgG 1 antibody (clone 27E10, Daley LP, et al. Clin. Diagn Lab Immunol. 1 2, 2005) and a HRP-conjugated donkey anti-mouse antibody (Jackson) for detection.
  • a mouse anti llama IgG 1 antibody clone 27E10, Daley LP
  • Phage expressing Fabs were produced according to standard protocols and selections performed on immobilized recombinant soluble G ARP-TGF
  • hGARP and ⁇ (LAP) counter selections were used to enrich for Fabs binding the hGARP-TGF i complexes.
  • Individual colonies were isolated and periplasmic fractions (peris) in 96- well plates were produced by IPTG induction from all the libraries according to standard protocols. Screening of the hGARP-TGFf] specific Fabs was performed using ELISA.
  • hGARP- TGF i was immobilized on a maxisorb plate. After blocking with 1% casein in PBS for I h. Fab from 20 ⁇ 1 periplasmic extracts were allowed to bind to hGARP-TGFf] 1 .
  • VK chain shuffling was used to improve the affinity of the mAb LHG- 10 ( Figure 10).
  • the heavy chain of the parental clone (VHCH 1 of LHG- 10) was reintroduced in the phagemid-light chain library.
  • the heavy chain was extracted from an expression vector, which lacks the bacteriophage derived gene 3 necessary for display, to further avoid contamination of the parental light chain in the selection procedure.
  • the heavy chain was cloned into the phagemid-light chain library and the ligated DN A was electroporated into E.coli TGI cells to create the light chain shuffled library.
  • the size of libraries was above 10 8 .
  • Affinity selections combined w ith off-rate washes, were performed to select for chain shuffled Tabs with an improved affinity for human GARP-TGF(3 1 .
  • a set-up was chosen where Fab expressing phages were incubated with different concentrations of recombinant soluble human GARP-TGFpi directly coated to the microsorb plate.
  • LHG- 10-D IgGs were checked for cross-reactivity on cyno GARP/cyno TGF- ⁇ 1 in a FACS-based assay using HEK-293E cells transfected with cyno GARP/cyno TGFf] 1 or human GARP/human TGF(31 .
  • MFIGARP8 was also tested in this cross-reactivity assay. All LHG-IO-D and MHG-8 are cross-reactive against cyno GARP/cyno TGFf] 1 ( Figure 9).
  • Example 6 Two anti-hGARP mAbs ( MHGARP8 and LHG- 10) inhibit active TGF-Bl production by human Tregs Stimulated human Tregs produce active TGF-B l close to their cell surfaces. Autocrine and paracrine TGF-Bl activity induces SMAD2 phosphorylation in Tregs themselves, and in Th cells co-cultured with Tregs (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869- 882).
  • phosphorylated SMAD2 was detected in the stimulated Tregs, but not in non-stimulated Tregs, nor in Tregs stimulated in the presence of a neutralizing anti- TGF-Bl antibody ( Figure 1 1).
  • Phosphorylated SMAD2 was greatly reduced in Tregs stimulated in the presence of MHGARP8 (named MHG-8 on Figure 1 1 , part A) or LHG- 10 ( Figure 1 1, part B), indicating that these two anti-hGARP mAbs block active TGF- ⁇ production.
  • the inhibitory activity of MHGARP8 and LHG- 10 shows that GARP is required for active TGF-Bl production by human Tregs.
  • Example 7 MHGARP8 and LHG-10 inhibit the suppressive activity of human Tregs in vitro
  • Tregs suppress other T cells at least in part through production of active TGF- ⁇ I ( Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882).
  • MHGARP8 MHG-8
  • LHG- 10 also inhibit human Treg function in in vitro suppression assays.
  • a Treg clone was used as a source of Tregs, and freshly isolated CD4 CD25 CD 127 hi cells or a CD4 T cell clone (Th cells) as targets for suppression. Tregs and Th cells were stimulated with >CD3 and >CD28 in the presence or absence of various additional mAbs.
  • clone Treg A 1 inhibited the proliferation of CD4 + CD25 " CD127 hl Th cells by 66 % in the absence of anti-hGARP mAb. Suppression was reduced to 36% and 32% in the presence of MHG- 8 or LHG- 1 0, respectively, but was not reduced in the presence of 6 other anti-hGARP mAbs. Suppression by clone Treg A 1 on another Th target (clone Th A2) was also measured in the presence of MHGARP8, an anti-hTGF- ⁇ 1 mAb or an isotype control.
  • MHGARP8 (MHG-8) inhibited the in vitro suppressive activity of Treg Al in a manner similar to that of the anti-TGF- ⁇ 1 antibody, whereas the isotype control showed no effect (Figure 12).
  • Example 8 Epitopes recognized by inhibitory anti-hGARP mAbs
  • GARP associates with pro- or latent TGF-B 1 to form disulfide-linked GARP/TGF- ⁇ 1 complexes ( Figure 13 and Stockis 2009b Eur. J. Immunol. 2009. 39: 3315-3322 and Gauthy E et al).
  • IP co-immunoprecipitation
  • a first group (left column) comprises the 8 mAbs that did not co-immunoprecipitate pro- or latent TGF- ⁇ 1 : they bound 293 T cells transfected with hGARP alone, but not with hGARP and hTGFBI. This confirms that these mAbs bind free GARP only, as binding to surface GARP is lost in the presence of TGF-B I ( Figure 14, part B, shows 3 representative mAbs of this group).
  • a second group comprises most other mAbs (19 mAbs, middle column of Figure 13, part B): they bound 293 T cells equally well upon transfection with hGARP alone or with hGARP and hl ' Gl-Bl, indicating that they bind both free GARP and GARP/TGF-B 1 complexes ( Figure 14, part B, shows 6 mAbs of this group).
  • a third group of 5 mAbs bound 293 T cells transfected with hGARP and hTGFBl, but not cells transfected with hGARP alone (right column of Figure 13, part B). These mAbs bind GARP/TGF-Bl complexes but not free GARP, and include inhibitory MHGARP8 (MHG-8) and LHG- 10 ( Figure 14, part B, shows 3 mAbs of this group).
  • Binding patterns to mGARP/hGARP chimeras (Figure 15, part A, 10 representative mAbs) allowed to identify the region of hGARP required for binding by each anti-hGARP mAb. This is summarized in Figure 15, part B, where mAbs are distributed in rows corresponding to various regions of hGARP: mAbs in the first row require a region comprising amino- acids 20 to 101 (hGARP 2 o-ioi), mAbs in the second row require hGARPmi-m, those in the third require the fourth, hGARP 2 65-332, and finally, a fifth group requires hGARP 332 ..628.
  • Sequences of mouse and human GARPioi-m differ at 14 amino-acid (aa) positions, comprising three clusters of three contiguous positions ( Figure 15, part B, left panel).
  • aa 14 amino-acid
  • Binding patterns to mutants revealed three types of mAbs ( Figure 15, part B, right panel), which required amino-acids hGARPiii-i ij, hGARP 12 6 -127 , or hGARPi 3 ⁇ 4--i ⁇ ) for binding, respectively.
  • Example 9 Inhibition of human Tregs function by anti-hGARP in vivo
  • GVHD xenogeneic graft-versus-host disease
  • NSG mice have defective cytokine signaling and lack functional T, B and NK cells, allowing very efficient engraftment of human T cells upon i. v. injection of PBMCs.
  • mice dev elop xenogeneic GVHD, due to the activ ity of human cytotoxic T lymphocytes against murine tissues ( Shultz, Nat Rev Immunol. 20 1 2 Nov; 12( 1 1 ):786-98 ).
  • co-transfer of human Tregs w ith human PBMCs attenuates GVHD (Harmon et al. Transfusion. 20 14 Feb ; 54( 2 ) : 353 -63 ), prov iding a model to test the inhibitory activity of anti-hGARP mAbs on human Tregs in vivo.
  • mice We transferred human PBMCs (3xl0 mouse) with or without autologous Tregs (1.5xl0 6 /mouse) in N SG mice ( Figure 16, part A).
  • PBMCs 3xl0 mouse
  • autologous Tregs 1.5xl0 6 /mouse
  • mice were injected with MHGARP8 (named MHG-8 on the figure), anti-TGF-B I , an isotype control or PBS, one day before the graft and weekly thereafter.
  • Objective signs of GVHD were monitored bi-weekly, to establish a disease score based on weight loss, reduced mobility, anemia or icterus, and hair loss.
  • MHGARP8 inhibits the immune-suppressive function of human Tregs in vivo.
  • MHGARP-8 did not aggravate GVHD in mice grafted with PBMCs alone, thus that its effect depended on the co-injection of Tregs (Fig. 17).
  • Fig. 17 We also examined whether abrogation of Treg protection by MHGARP-8 depended on its ability to block TGF- ⁇ production.
  • MHGARP-8 was compared to LHG-10.6, which also blocks TGF- ⁇ production by Tregs, and to LHG-3, which does not.
  • Antibody LHG- 10.6 is a variant of LHG-10 with increased affinity for GARP/ ⁇ GF- ⁇ ⁇ complexes that was selected by phage display from Fabs in which the heavy chain of LHG- 10 was combined to the VK library. Like MHGARP-8, LHG- 10.6 aggravated GVHD, whereas non-blocking antibody LHG-3 had no effect (Fig. 17). This suggested that MHGARP-8 and LHG-10.6 abrogate Treg protection by blocking Treg production of TGF- ⁇ , and not by inducing Treg depletion. To further exclude the latter possibility, a mutated version of LHG-10.6, named LHG-10.6N297Q, was also tested.
  • the N297Q mutation results in loss of Fc glycosylation, thus loss of Fc receptor- and C I q- binding, and consequently loss of ADCC and CDC functions.
  • LHG- I 0.6N297Q aggravated GVHD in mice grafted with PBMCs and Tregs as potently as LHG-10.6, confirming that anti- GARP antibodies do not act by depleting Tregs (Fig. 17).
  • cytokines in the serum of mice 20 days after cell transfer were measured (Fig. 18, part A).
  • Human IL-2 and IFNy were detected at high levels in mice grafted with PBMCs only, indicating a strong xenogeneic activation of human T cells. They were significantly reduced by the cotransfer of Tregs, confirming suppressive activity.
  • MHGARP-8 decreased the suppression by Tregs, but had no effect in mice transferred with PBMCs alone.
  • IL-10 levels were not increased but instead reduced in the presence of Tregs, suggesting that Tregs do not suppress through production of IL-10 in this model (Fig. 18, part A).
  • hCD45+ human hematopoietic cells
  • CD4+ and CD8+ T lymphocytes
  • MHGARP-8 Fig. 18, part B
  • the numbers and proportions of Tregs were not reduced in mice treated with MHGARP- 8.
  • Treg numbers were significantly increased in mice transferred with Tregs and treated with MHGARP-8 as compared to untreated mice (Fig.
  • inhibitory anti-GARP mAbs are capable of inhibiting the immunosuppressive activity of human Tregs in vivo without inducing Treg depletion.
  • Example 10 X-ray crystal structures of the Fab-fragment generated from antibody MHGARP8 in complex with the GARP/TGF-B complex.
  • the Fab fragment of MHG-8 was prepared by papain digestion of MHG-8 and purified using Protein A affinity chromatography and gel filtration chromatography.
  • the MHG- 8 Fab fragment was added to the GARP/T GFP complex to allow binding of the Fab to its antigen.
  • the Fab-fragment purified in this way was mixed with the GARP/ TGFbeta complex and applied on a gel filtration column in 20 mM Tris/HCl pH 8.0, 50 niM NaCl.
  • the Fab/GARP/TGF(3 complex was concentrated on a 50 kD Vivascience ultrafiltration device to a final concentration of 18 mg/mL, as determined by Nanodrop (UV).
  • This MHG-8 Fab/GARP/TGF complex (where ⁇ is comprised of LAP and mature ⁇ ) was purified and used for crystallization.
  • the purified protein was used in crystallisation trials employing a standard screen with approximately 1,200 different conditions. Conditions initially obtained have been optimised using standard strategies, systematically varying parameters critically influencing crystallisation, such as temperature, protein concentration, drop ratio, and others. These conditions were also refined by systematically varying pH or precipitant concentrations.
  • the application of the Free Mounting System (FMS) was necessary to obtain well diffracting crystals.
  • the crystals were coated with oil and transferred to the N2 cryo- stream at 100K. Crystals have been flash- frozen and measured at a temperature of 100 K.
  • the X-ray diffraction data have been collected from complex crystals at the SWISS LIGHT SOURCE (SLS, Villigen, Switzerland) using cryogenic conditions. The crystals belong to space group P 2 1. Data were processed using the programs XDS and XSCALE. Table 5
  • the phase information necessary to determine and analyse the structure was obtained by molecular replacement.
  • the published structures of latent TGFbeta (PDB-ID 3RJR), Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor interacting protein 1 (PDB-ID 40QT) and Fab-fragment (PDB-ID IFNS) were used as a search models.
  • Subsequent model building and refinement was performed according to standard protocols with the software packages CCP4 and COOT.
  • a measure to crossvalidate the correctness of the final model about 0.6 % of measured reflections were excluded from the refinement procedure (see Table 6).
  • VV CllC 0 V/
  • Test-set contains 0.6% of measured reflections
  • the crystal structure of the Fab.GARP/TGF-B complex al lowed the identification of the epitope recognized by the antibody MHGARP8.
  • the Fab-fragment binds a composite three dimensional epitope on the Fab:GARP/TGF-B complex.
  • the interaction surface on the Fab:GARP/TGF-B complex is formed by several continuous and discontinuous sequences from both hGARP (Tables 7a and 7b respectively) and TGF-B (Table 7c), showing interactions between TGF residues and MHG-8 heavy chain residues.
  • Table 7a Interactions between GARP residues (left side) and MHG-8 heavy chain residues (right side)
  • Example 1 1 Impact of mutations in GARP or TGF- ⁇ 1 on the binding and activity of inhibitory anti-GARP antibodies MHG-8 and LHG-10.
  • Geom corresponds to the geometric mean of the fluorescence intensity measured by FACS on 293 T cells transfected with empty plasmid (control) o plasmids encoding the mutant or WT forms of G ARP/TGF-B 1 complexes.
  • Results obtained on all mutants are detailed in Figure 19, parts A-D for binding by inhibitory anti-GARP antibodies MHG-8 and LHG-10, non-inhibitory anti-GARP antibody MHG-6, and anti-LAP antibody, respectively. They are also summarized in Table 8 for MHG-8 and LHG-10.
  • Table 8 Effects of GAEP and TGF
  • part A demonstrates that only one mutation in TGF-Bl results in loss of binding by MHG-8. This mutation corresponds to K338E (25% residual binding).
  • K338E 25% residual binding
  • 8 a a from LAP and 6 a a from mature TGF- ⁇ 1 that are in contact with MHG-8 Fab in the crystal only one aa in mature TGF-Bl (Lys338) is required for binding to the MHG-8 mAb.
  • L140K/E142L does not induce loss of binding to LHG- 10, in contrast to what was observed for MHG-8, confirming that the mode of binding of LHG- 10 to G ARP is different from that of MHG-8;
  • single mutation T162D induces loss of binding by LHG- 1 0 (49% residual binding), whereas it had no effect on binding by MHG-8; single mutation R163E induces loss of binding by LHG- 10 (48% residual binding).
  • Figure 19 part B also shows that one mutation in mature TGF- ⁇ 1 ( 338E, 15% residual binding) induces loss of binding to LHG-10. This mutation also induced loss of binding to MHG-8.
  • One other mutation in mature TGF-I 1 (Y336A, 56% residual binding) induced partial loss of binding to LHG-10, whereas it did not affect binding to MHG-8.
  • Relative staining intensity [Geom with X jig/ml of antibody - Geom in the absence of antibody] / [Geom with 5 jig/ml of antibody - Geom in the absence of antibody]
  • the relative staining intensities were plotted according to the concentration of antibody used for staining, and a non-linear regression analysis was used with the Prism software to determine an EC 50 value for binding of the antibody to the WT and to each of the various mutant GARP/TGF- ⁇ I complexes. If the ratio between the EC 50 measured on the mutant and the EC 50 measured on the WT was > 2, the mutation was considered to induce a reduced avidity for binding by the antibody.
  • the ratio of EC 50 (mutant vs WT) for MHG-8 and LHG-10 are indicated below each mutation on Figure 19, parts A and B, respectively. The data from this experiment is also summarized in Table 8.
  • Transiently transfected cells (293T + ITGB6 or 293T+ITGB6 ; GARP) were incubated during 24 hours with inhibitory anti-GARP antibodies MHG-8 or LHG-10, or with control antibodies corresponding to a neutralizing anti-TGF-B 1 antibody (positive control ), or the non-inhibitory anti-GARP antibody LHG- 14 (negative control ). All antibodies were used at 20 ng/ml. Cells were then lysed and incubated with a luciferase substrate and the luminescent signal was measured in a luminometer. To compare various mutants tested in different experiments, the inhibitory activity of antibodies were experessed as follows:
  • Residual inhibitory activity 100 x
  • Results obtained are detailed in Figure 20, parts A-C for MHG-8, LHG- 10 and anti- T ' GF- ⁇ I , respectively, and summarized in Table 8.
  • mice (DBA/2, Balb/c, and NOD.Cg-Prkdcscid I12rgtm I Wjl/SzJ or NSG from The Jacskon Laboratory) were bred at the animal facility of the Universite Catholique de Louvain, Belgium. Handling of mice and experimental procedures were conducted in accordance with national and institutional guidelines for animal care.
  • Pl .HTR cells a highly transferable variant of the P815 mastocytoma derived from DBA/2 mice, were electroporated with a plasmid encoding the full-length human GARP and selected in puromycin (1.6 ng/ml) under limiting dilution conditions.
  • Two clones expressing high surface hGARP (Pl .HTR+hGARP) were isolated and used to immunize H-2d mice.
  • a stable clone of murine BW5 147.C2 cells expressing high levels of human GARP (BW5147+hGARP) was derived as described (E. Gauthyet al, PLoS One 8, e761 86 (2013)).
  • This clone was electroporated with a plasmid encoding full-length human TGF-b 1 , and selected in neomycin (3 mg/ml) under limiting dilution conditions.
  • a subclone expressing high levels of surface hGARP/h I GF- ⁇ 1 complexes (BW5 147+hGAR ; hTGFB 1 ) was isolated and used to immunize llamas.
  • Human Treg and Th clones were derived and cultured as previously described (J. Stockis, et al. Eur. J. Immunol. 39, 869-882 (2009).).
  • Total human PBMCs were purified from the blood of hemochromatosis donors by centrifugal ion on a Lymphoprep® gradient.
  • Human polyclonal Tregs were obtained by sorting CD4+CD25+CD1271o cells by FACS from total PBMCs, followed by / / vitro stimulation with anti-CD3/CD28 coated beads in the presence of IL-2 during 12-13 days, as described (E. Gauthyet al. PLoS One 8, e76186 (2013).).
  • 293T cells were transiently transfected with hGARP- and hTGF- ⁇ 1 -encoding plasmids using the TransIT-LTl transfection Reagent (Minis Bio).
  • DBA 2 or Balb/c mice were immunized with live Pl .HTR+hGARP cells, following a previously described injection scheme (M. M. Lemaire, et al. J. Immunol. Methods, (201 1)).
  • Lymphocytes from mice with high titers of anti-hGARP antibodies as determined by FACS, were fused to SP2/neo cells in the presence of polyethylene glycol.
  • Hybridomas were selected in HAT medium and cloned under limiting dilution conditions.
  • Supernatants of hybridoma clones were screened by FACS for the presence of antibodies binding to BW5147+liGARP cells. Fourteen positive clones were selected, further subcloned to ensure clonal ity, and amplified for large scale-production and purification of 14 new anti-hGARP mAbs (MHG- 1 to - 14).
  • Blood samples (10 ml) were collected to monitor IgGl responses against hGARP/TGF- ⁇ complexes by EL IS A, using immobilized recombinant GARP/TGF- ⁇ 1 complexes (produced in HEK-293E cells co-transfected with hTGFB 1 and hGARP truncated from the transmembrane-coding region) for capture, followed by a mouse anti-llama IgGl antibody (clone 27E10) and a HRP-conjugated donkey anti-mouse antibody (Jackson) for detection.
  • immobilized recombinant GARP/TGF- ⁇ 1 complexes produced in HEK-293E cells co-transfected with hTGFB 1 and hGARP truncated from the transmembrane-coding region
  • a mouse anti-llama IgGl antibody clone 27E10
  • HRP-conjugated donkey anti-mouse antibody Jackson
  • 450 Lig of RNA were obtained and used for random cDNA synthesis followed by PGR amplification of the immunoglobulin heavy and light chain variable regions (VH, ⁇ and VK).
  • VH, ⁇ and VK immunoglobulin heavy and light chain variable regions
  • Phages expressing Fabs were produced and selected according to standard protocols. Briefly, 2 to 3 rounds of phage selections were performed by binding on immobilized recombinant GARP/TGF- ⁇ 1 , washing and elution with trypsin. In some instances, counter selections with soluble hGARP (hGARP 1-628 fused to a TEV-3xStrepTag produced in 293E cells) and soluble latent TGF- ⁇ 1 were used to enrich for Fabs binding hGARP/TGF- ⁇ 1 complexes only.
  • Fab clones were divided into 1 7 families, based on similarities in the sequences coding for the VH CDR3 region.
  • VH and VL sequences from one representative clone of each family were subcloned in a full human IgGl backbone, and the resulting plasmids were transfected into HEK-293E cells to produce and purify 1 7 new anti-hGARP mAbs (LHG-1 to - 1 7).
  • Proportions of cells w ith a demethylated ⁇ 3 ⁇ 1 in human PBMCs, in human polyclonal Treg populations or in splenocytes from NSG mice grafted with human cells were measured by methyl-specific qPCR as described ( 1. .1. de Vries, et al. Clin. Cancer Res.
  • CCTATAAAATAAAATATCTACCCTC (SEQ ID NO: 58); demethylated FOXP3il alleles: TCTACCCTCTTCTCTTCCTCCA (SEQ ID NO: 59)/ GATTTTTTTGTTATTGATGTTATGGT (SEQ ID NO: 60)/
  • a human Treg clone (10° cells/ml ) was stimulated in serum-free medium with coated anti-CD3 (Orthoclone O I 3; Janssen-Cilag, 1 g/ml) and soluble anti-CD28 (BD Biosciences; I ng-'ml ), in the presence or absence of 10 ug/ml of an anti-hGARP mAb (clones tested: MHG-1 to -14; LHG-1 to -17; Plato- 1 from Enzo Life Sciences; 272G6 and 50G10 from Synaptic Systems; 7B 1 1 from BioLegend) or of an anti-hTGF- ⁇ antibody (clone 1 D 1 I , R&D systems).
  • Intact or permeabilized cells were labeled according to standard protocols, using combinations of the following primary and/or secondary reagents as indicated in the figures.
  • Primary antibodies biotinylated MHG- 1 to 14; LHG-1 to - 1 7; anti-hGARP clone Plato 1 (Enzo Life Sciences); antihCD45-PerCP, anti-hCD3 ⁇ FITC or anti-hCD3- APC, anti-hCD4-FITC or anti-hCD4-APC, antihCD45RA-PE-Cv7 (Biolegend); anti- hCD8a-APC-H7, anti-CD25-PE-Cy7, anti-hCD I 27-PE (BD Biosciences); anti- hFOXP3-PE or anti-hFOXP3-APC (eBiosciences); anti-liLAP-APC (R&D Systems); anti-HA (Eurogentec).
  • Th cells were seeded alone or with the indicated numbers of Tregs, and stimulated with coated anti-CD3 (Orthoclone OKT3, Janssen-Cilag, 1 .ug/ml) and soluble anti-CD28 (BDBiosciences, 1 ⁇ g/ml), in the presence or absence of 10 ⁇ «/ ' ⁇ 1 of an anti-hGARP mAb (MUG or LUG), an anti-TGF-b antibody (clone 1 D1 1, R&D Systems) or an isotype control (mlgGl clone 1 1 7 1 1 , R&D Systems), [methy!- 3H]Thymidine (0,5 mCi/well) was added during the last 16 hours of a 4 day-culture.
  • coated anti-CD3 Orthoclone OKT3, Janssen-Cilag, 1 .ug/ml
  • soluble anti-CD28 BDBiosciences, 1 ⁇ g/ml
  • mice were irradiated (1.5 Gy) one day before tail vein injections of human PBMCs (3xl0 6 per mouse) alone, or mixed with autologous polyclonal Tregs (1.5xl0 6 per mouse).
  • mice received i.p. injections of PBS or 400 tig of MHG-8 (mlgGl), an anti-TGF-bl antibody (mlgGl clone 13A1/A26) or an isotype control (mlgGl anti-TNP clone B840 1 H5.M). Mice were monitored biweekly for the development of GVH D.
  • a global disease score was established by adding up scores attributed in the presence of the following symptoms: weight loss (1 if >10%; 2 if >20%); anemia or icterus (1 if white or yellow ears; 2 if white or yellow ears and tail); humped posture (1); reduced activity (1 if limited activity; 2 if no activity); hair loss (1). Mice were euthanized when reaching a global score >6. Death corresponds to a maximum score of 8. Cytokine concentrations in sera
  • Concentrations of human 1 L-2, IL-10, and IFNg in mouse serum were determined using a Bio-Plex Pro Human Cytokine 17-plex Assay according to the manufacturer's recommendations (Bio-Rad Laboratories). Limits of detection in this assay were: 0.12 pg/ ' ml for IL-2; 1.56 pg/ ' ml for IFNy; 2.48 pg/ml for IL-10.

Abstract

The present disclosure relates to a protein binding to GARP in the presence of TGF-β and uses thereof.

Description

ANTI-GARP PROTEIN AND USES THEREOF
RELATED APPLICATION
This patent application claims the benefit of U.S. Provisional Patent Application 62/111,429, filed February 3, 2015, each is incorporated herein by reference in its entirety.
FIELD OF INVENTION
The present invention relates to human anti-GARP protein that inhibits TGF-β signaling. The present invention also relates to the treatment of immune disorders and diseases such as cancer. BACKGROUND OF INVENTION
Since the molecular identification of the first human tumor antigens in the early 1990's, several clinical trials were completed to evaluate the effects of therapeutic vaccination of cancer patients with shared tumor-specific antigens ( Boon, T. et al. Annu. Rev. Immunol. 2006, 24: 175-208). Evidence of tumor regression was observed in about 20% of the patients, with objective clinical responses in 5-10%. Therefore, vaccination with tumor-specific antigens represents a new promising therapy for treating cancer.
Strategies are needed to improve the proportion of patients that respond to vaccination. The main limiting factor to clinical efficacy of current therapeutic cancer vaccines does not appear to be the vaccine itself, but local factors controlling the tumor m i croen vi ronment in which the anti-tumor T cells have to work.
Regulatory T cells, or Tregs, are a subset of CD4+ T lymphocytes specialized in the inhibition of immune responses. Insufficient Treg function results in autoimmune pathology, while excessive Treg function may inhibit anti-tumor immune responses in cancer patients. The exact mechanisms by which Tregs inhibit immune responses are not fully understood. Due to their immunosuppressive functions, Tregs represent potential inhibitors of spontaneous or vaccine-induced anti-tumor immune responses. In murine models, the depletion of Tregs can improve immune responses against experimental tumors (Colombo et al. Nat. Rev. Cancer 2007, 7:880-887). Thus, targeting Tregs in humans could improve the efficacy of immunotherapy against cancer.
It has been demonstrated that active TGF-β is produced by human Tregs, but not other types of human T lymphocytes (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882), TGF-β could be a target of interest.
However, antibodies against hTGF-13 were not found promising. Phase 1 clinical trials have been conducted in focal segmental glomerulosclerosis ( FSGS), idiopathic pulmonary fibrosis ( IPF) and advanced malignant melanoma or renal cell carcinoma (RCC) (Lonning S et al. Current Pharmaceutical Biotechnology 20 1 1 , 12:2176-2189). Depending on the trial, adverse events were observed in some patients. The main adverse reactions reported consisted in the development of keratoacanthoma ( A) and squamous cell carcinoma (SCC) in melanoma patients. It is possible that the K A or SCC lesions in melanoma patients evolved from pre-cancerous cells w hose proliferation was being inhibited by endogenous TGF-β (Lonning S et al. Current Pharmaceutical Biotechnology 201 1 , 1 2:2 1 76-2 1 89). Therefore, a major concern regarding the use of anti-TGF-β antibodies in the context of cancer is that they may favor the appearance of new neoplastic lesions, due to the inhibition of the tumor-suppressive effect exerted by endogenous TGF-13 on pre-cancerous cells.
One object of the invention is to provide a new strategy for improving cancer treatment by targeting Tregs via their production of TGF-β.
It was prev iously shown that the production of TGF-β is tightly regulated by a multi- step process. The precursor pro-TGF-β 1 homodimerizes prior to cleavage by pro- protein convertase FURI . The resulting product is called latent TGF-βΙ, in which the C-terminal fragment, or mature TGF-Bl, remains non-covalently bound to the N- terminal fragment known as the Latency Associated Peptide, or LAP. This latent complex is inactive because LAP prev ents mature TGF-131 from binding to its receptor. In the present application, the inventors show that latent TGF-B is shown to bind to the surface of Tregs through the transmembrane protein GARP (glycoprotein A repetitions predominant).
The present invention therefore provides a new strategy for targeting Treg based on an anti-GARP protein inhibiting TGF-B signaling.
SUMMARY
One object of the invention is a protein binding to Glycoprotein A repetitions predominant (G ARP) in the presence of TGF-B. In an embodiment, said protein binds to GARP only in the presence of TGF-B. In another embodiment, said protein binds to GARP when GARP is complexed to TGF-B. In another embodiment, said protein binds to a complex of G ARP and TGF-B.
In an embodiment of the invention, said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi-specific antibody, a diabody, a triabody, a tetrabody.
In another embodiment, said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
In another embodiment, said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
Another object of the inv ention is a protein as described here above or a protein binding GARP and inhibiting TGF-B signaling.
In an embodiment, said protein is an antibody or antigen binding fragment thereof that binds to a conformational epitope comprising one or more amino acids of G ARP or an epitope of G ARP modified as a result of G ARP being complexed with latent TGF-B. In another embodiment, said antibody or antigen binding fragment thereof further binds one or more amino acids of latent TGF-β. In another embodiment, said antibody or antigen binding fragment thereof binds an epitope comprising one or more residues from residues 101 to 14 1 of GARP as set forth in SEQ ID NO: 1 .
Another object of the invention is a protein having the variable region of the heavy chain comprising at least one of the following CDRs:
V H-CDR l GFSLT GYGIN (SEQ ID NO: 2) or GYGI N (SEQ ID NO: 52);
V H-CDR2 MIWSDGSTDYNSVLTS (SEQ ID NO: 3); and
VH-CDR3: D NYYDYDGAMDY (SEQ ID NO: 4),
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 2-4 or 52,
or having the variable region of the light chain comprising at least one of the following CDRs:
V L-CDRl KASDHIKNWLA ( SEQ ID NO: 5);
VL-CDR2: GATSLEA ( SEQ ID NO: 6); and
VL-CDR3: QQYWSTPWT (SEQ ID NO: 7),
or any CDR having an amino acid sequence that shares at least 60% identity with
SEQ ID NO: 5-7; or the variable region of the heavy chain comprises at least one of the following CDRs:
V H-CDR l SYYID ( SEQ ID NO: 13);
VH-CDR2: RIDPEDGGTKYAQKFQG (SEQ ID NO: 14);
V H-CDR3 or NEWETVVVGDLMYEYEY ( SEQ ID NO: 15),
or any CDR having an amino acid sequence that shares at least 60% identity with
SEQ ID NO: 13-15; or wherein the variable region of the light chain comprises at least one of the following CDRs:
VL-CDRl : QASQX, I X2S X3LA ( SEQ ID NO: 16), wherein X, is S or T, X2 is S
Figure imgf000006_0001
V L-CDR2 X1X2SX3X4X5T ( SEQ ID NO: 17), wherein X, is G or R; X2 is A or
T; X3 is R or I; X4 is L or P; Xs is Q or K; VL-CDR3: QQYX1SX2PX3T, wherein X, is D, A, Y or V; X2 is A, L or V; X3 is V or P (SEQ ID NO: 18);
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 16-18.
In an embodiment, the variable region of the heavy chain comprises at least one of the following CDRs:
VH-CDR1: GFSLTGYGIN (SEQ ID NO: 2) or GYGIN (SEQ ID NO: 52); VH-CDR2: MIWSDGSTDYNSVXTS (SEQ ID NO: 3); and
VH-CDR3: DRNYYDYDGAMDY (SEQ ID NO: 4),
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 2-4 or 52,
and the variable region of the light chain comprises at least one of the following
VL-CDR1: KASDHIKNWLA (SEQ ID NO: 5);
VL-CDR2: GATSLEA (SEQ ID NO: 6); and
VL-CDR3: QQYWSTPWT (SEQ ID NO: 7),
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 5-7;
or the variable region of the heavy chain comprises at least one of the following CDRs:
V H-CDRl SYYID (SEQ ID NO: 13);
VH-CDR2: RIDPEDGGTKYAQKFQG (SEQ ID NO: 14);
VH-CDR3: or NEWETVVVGDLMYEYEY (SEQ ID NO: 15);
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 13-15, and the variable region of the light chain comprises at least one of the following
CDRs:
V L-CDRl : QASQXjI X2S X3LA (SEQ ID NO: 16), wherein X, is S or T, X2 is
S or V, X; is Y or F;
VL-CDR2: XiX2SX3X4X5T (SEQ ID NO: 17), wherein X, is G or R; X2 is A or T; X is R or I; X4 is L or P; X5 is Q or K; VL-CDR3: QQYX1SX2PX3T, wherein Xi is D, A, Y or V; X2 is A, L or V; X3 is V or P (SEQ ID NO: 18);
or any CDR having an amino acid sequence that shares at least 60% identity with SEQ ID NO: 16-18. In another embodiment, the variable region of the heavy chain comprises the following CDRs: GFSLTGYGIN (SEQ ID NO: 2), MIWSDGSTDYNSVLTS (SEQ ID NO: 3), DRNYYDYDGAMDY (SEQ ID NO: 4) and the variable region of the light chain comprises the following CDRs: KASDHIKNWLA (SEQ ID NO: 5), GATS LEA (SEQ ID NO: 6), QQYWSTPWT (SEQ ID NO: 7) or any CDR having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 2-7; or the variable region of the heavy chain comprises the following CDRs: GYGIN (SEQ ID NO: 52), MIWSDGSTDYNSVLTS (SEQ ID NO: 3), DRNYYDYDGAMDY (SEQ ID NO: 4) and the variable region of the light chain comprises the following CDRs: KASDHIKNWLA (SEQ ID NO: 5), GATSLEA (SEQ ID NO: 6), QQYWSTPWT (SEQ ID NO: 7) or any CDR having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 52 and 3-7; or wherein the variable region of the heavy chain comprises the following CDRs: SYYID (SEQ ID NO: 13), RIDPEDGGTKYAQKFQG (SEQ ID NO: 14), or NEWETVVVGDLMYEYEY (SEQ ID NO: 15); and the variable region of the light chain comprises the following CDRs: QASQXiI X2S X3LA (SEQ ID NO: 16), wherein Xi is S or T, X2 is S or V, X3 is Y or F; X1X2SX3X4X5T (SEQ ID NO: 17), wherein Xi is G or R; X2 is A or T; X3 is R or I; X4 is L or P; X5 is Q or K; QQYX, SXjPX i , wherein Xi is D, A, Y or V; X2 is A, L or V; X3 is V or P (SEQ ID NO: 18); or any CDR having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 16-18.
In another embodiment, the amino acid sequence of the heavy chain variable region is SEQ ID NO: 8 or SEQ ID NO: 50 and the amino acid sequence of the light chain variable region is SEQ ID NO: 9 or SEQ ID NO: 51, or the amino acid sequence of the heavy chain variable region is SEQ ID NO: 34 and the amino acid sequence of the light chain variable region is one of SEQ ID NO: 35-39 or any sequence having an amino acid sequence that shares at least 60% identity with said SEQ ID NO: 8-9, 50-51 or 34- 39.
Another object of the invention is a protein as defined here above binding to an epitope on the polypeptide having the amino acid sequence SEQ ID NO: 1 recognized by an antibody comprising a heavy chain variable region as set forth in SEQ ID NO: 8 or in SEQ ID NO: 50 and a light chain variable region as set forth in SEQ ID NO: 9 or in SEQ ID NO: 51, or by an antibody comprising a heavy chain variable region as set forth in SEQ ID NO: 34 and one of the light chain variable region as set forth in SEQ ID NO: 35-39. Another object of the invention is an antibody or antigen binding fragment produced by a hybridoma registered under the accession number LMBP 10246CB on May 30, 2013.
Another object of the invention is a polynucleotide sequence encoding the antibody or antigen binding fragment as described here above.
Another object of the invention is an expression vector comprising the polynucleotide according to claim as described here above.
Another object of the invention is a hybridoma cell line producing an antibody against GARP registered under the accession number LMBP I 0246CB on May 30, 2013.
Another object of the invention is a pharmaceutical composition comprising the protein as described here above and a pharmaceutically acceptable excipient. Another object of the invention is a pharmaceutical composition as described here above for treating a TGF-β related disorder in a subject in need thereof. In an embodiment, the TGF-13 related disorder is selected from the group consisting of inflammatory diseases, chronic infection, cancer, fibrosis, cardiovascular diseases, cerebrovascular disease (e.g. ischemic stroke), and neurodegenerative diseases. In another embodiment, the pharmaceutical composition as described here above is to be administered in combination with another treatment for cancer or another immunotherapeiitic agent such as a tumor vaccine or an immunostimulatory antibody . In another embodiment, the pharmaceutical composition as described here above is to be administered as an immunostimulatory antibody for treatment of cancer patients,
BRIEF DESCRIPTION OF THE DRAWINGS Figure 1. New monoclonal antibodies that recognize human GARP on the cell surface. Murine BW5147 T cells, transfected or not with human GARP (hGARP) were stained with biotinylated in-house anti-hGARP antibodies ( MHGARP I to 9) and streptavidin-PE (SA-PE, top panels), or with a commercial anti-hGARP antibody (clone Plato- 1 ) and secondary anti-mouse IgG2b coupled to AlexaFluor 488 (AF488, bottom panels).
Figure 2. M HGARP8 inhibits active TGF-β production by a human Treg clone. Clone Treg Al was stimulated during 24 hours with >CD3/CD28 antibodies, alone or in the presence of the indicated anti-hGARP mAbs (20 iig/'ml ). (A) Cell ly sates were analyzed by WB with anti-pSMAD2 and anti-B-ACTIN antibodies. (B) Quantification of ECL signals from WB shown in A.
Figure 3. (A) Regions in the hGARP protein required for binding by anti-hGARP antibodies. Murine BW5147 T cells expressing the HA-tagged proteins schematized on the left were stained with anti-hGARP (MHGARP 1 to 9, as indicated on top of the figure) or anti-HA antibodies, and analyzed by flow cytometry. Histograms are gated on live cells. Based on the FACS results, regions required for binding by the various MHGARP mAbs were identified and are indicated by horizontal bars above the representations of the H A-tagged chim eras.
(B) Abundance of the epitope recognized by MHGARP-8 increases upon overexpression of TGF-Bl. Parental BW5 47 T cells (BW untransfected) or clones stably transfected with hGARP alone (BW + hGARP) or with hTGFB 1 (BW + hGARP + hTGF-b 1 ) were stained as in A, or with anti-mLAP-AF647 or anti-liLAP-APC antibodies, and analyzed by flow cytometry.
(C) M HGARP- 1 , -2, -3, -4 and -5 recognize free hGARP, but not hGARP bound to TGF-Bl. Cell lysates from parental BW5147 T cells or a clone stably transfected with hGARP and hTGFB 1 were imunoprecipitated with anti-hGARP mAbs (MHGARP 1 to 9, as indicated on top of the figure). Cell lysates (30% input) or IP products were analyzed by Western blot with a commercial anti-hGARP mAb (clone Plato- 1, top panels) and with an antibody directed against a C-terminal epitope of TGF-Bl, which detects pro-TGF-B I as a 50 k Da band and mature TGF-Bl as a 1 3 kDa band (bottom panels). * A specific product detected in untransfected cells.
(D) Overexprcssion of hTGFBl in liGARP-transfeeted 293T cells decreases binding of M HGARP- 1 , -2, -3, -4, and -5, but increases binding of M HGARP-8. 293T cells were co-transfected with a liGARP-encoding plasmid (0.25 μg), the indicated amounts of a hTGFB I -encoding plasmid, and an empty plasmid to bring the total amount of transfected DNA to 2.5 iig in all conditions. Transfected cells were stained with anti-hGARP mAbs (MHGARP 1 to 9, as indicated on top of the figure), and analyzed by flow cytometry.
(E) Silencing of hTGFBl in liGARP-transduced JURKAT cells decreases binding of MHGARP-8. JURK AT cells, transduced or not with hGARP, were transfected with siRNA specific for the TGFB 1 mRNA (siTGFB I ) or a scramble siRNA control. Transfected cells were stained with anti-hGARP mAbs (MHGARP 1 to 9, as indicated on top of the figure) or with an anti-hLAP antibody, and analyzed by flow cytometry.
Figu e 4. Presentation of hTGF-Bl on the cell surface is not sufficient for binding by M HGA RP8. 293 T cells were transfected as indicated below, stained with anti-hLAP antibodies or with MGARP8, then analyzed by flow cytometry.
(A) Transfection with constructs encoding the HA-tagged proteins schematized on the left, without a hTGFB l construct.
(B) Co-transfection with constructs encoding the HA-tagged proteins schematized on the left, with a hTGFB 1 construct. Figure 5, Binding of M HGARP-2, -3 and -8 requires aniino-acids 137-138-139 of hGARP. Parental BW5 147 T cells (BW untransfected) or clones stably transfected with plasmids encoding HA-tagged forms of hGARP were stained with the indicated anti- hGARP or anti-HA antibodies, and analyzed by flow cytometry. The HA-tagged forms of hGARP tested here comprised aa 20-662 of hG ARP (wild type, WT), or aa 20-662 of hGARP in which groups of 3 amino-acids located in region 10 1 - 14 1 were replaced by the amino-acids found in the corresponding region of mGARP (Mut I, Mut II and Mut 111 ). Amino-acid sequences of region 10 1 - 14 1 of hGARP -WT, -Mut I, -Mut II, -Mut III and mGARP are indicated on the left. Amino-acids that differ between human and mouse GARP are highlighted by grey vertical boxes, and amino-acids mutated in Mut I, Mut II and Mut 111 are indicated by black horizontal boxes.
Figure 6. MHGARP8 inhibits Treg function in vivo. On day 0, the indicated groups of NSG mice received i.v. injections of human PBMCs, in combination or not with human Tregs. Mice from groups III and IV were treated with the MHGARP8 antibody, injected i.p. once a week, starting on day - 1. Objective signs of GvHD development in the recipient mice were monitored bi-weekly. A GvHD score was established based on weight loss (0: <10%; 1 : 10%-20%; 2: >20%; 3 : >30%), anemia (0: red or pink tail; 1 : white tail), posture (0: normal; 1 : hump), general activity (0: normal; 1 : limited), hair loss (0: no hair loss; 1 : hair loss) and icterus (0: white or red tail; 1 : yellow tail ). Maximum disease severity or death corresponded to a score of 7. (A) Experiment 1. Values represent mean scores. ( B) Experiment 2, Values represent mean scores + SEM.
Figure 7. New anti-hGARP niAbs. (A) Schematic representation of the experimental strategies used to derive anti-hGARP mAbs. (B) Flow cytometry analyses of clone Th A2 (human CD4+ Th cells which do not express hGARP), or Th.A2 cells transduced with hGARP, after staining with biotinylated MHG- 1 to - 14 mAbs and streptavidin coupled to PE (SA-PE), with LHG- 1 to -17 mAbs and a secondary anti-hlgGl antibody coupled to PE, or with a commercially available mouse anti-hGARP m Ab (clone Plato- 1) and a secondary anti-mIgG2b antibody coupled to AF647.
Figure 8. Immune responses from immunized llamas. (A) shows immune responses from DNA immunized llamas. (B) shows immune responses from llamas immunized with BW cells expressing hGARP/hTGFp.
Figure 9. Cross-reactivity to cynomolgus GARP-TG Fp measured on cells by FACS. 293 E cells were transfected with human / cyno GARP and human / cyno TGFB. LHG- 10-D and the affinity optimized variants are cross-reactive with cynomolgus GARP-TGFB. Figure 10. Sequences of LHG- 10 antibodies and its shuffle variants.
Figure 11. M HGA RP8 and LHG- 10 inhibit production of active TGF-β by human Tregs. After a short in vitro amplification, human CD4+CD25hiCD 1271o cells (Tregs) were re-stimulated with anti-CD3/CD28 coated beads during 24 hours, in the presence or absence of the indicated mAbs (10 ,ug/ml). Cells lysates were analyzed by Western Blot with antibodies against phosphorylated SMAD2 (pSMAD2), as a read-out for active TGF-13 production, or B-ACTIN (loading control).
Figure 12. M HGARP8 and LHG-10 inhibit the suppressive activity of human Tregs in vitro. (A) Freshly isolated human CD4+CD25-CD127hi cells (Th; 2xl04 per microwell) were seeded alone or with clone Treg Al (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882) at a 1/1 Treg to Th ratio. Cells were stimulated with coated anti-CD3 and soluble anti-CD28, in the presence or absence of the indicated anti-hGARP mAbs (10 μ«/ιη1 ). 3H-Thymidine (3H-Thy) was added during the last 16 hours of a 4-day culture and incorporation was measured in a scintillation counter as a read-out for proliferation. Bar histograms indicate kcpm (means of triplicates + SD). Clone Treg Al did not proliferate in the absence of Th cells (Treg alone: 0,5±0,04 kcpm ). Suppression of Th proliferation in the presence of Tregs is indicated above each black bar, and is calculated as follows: % suppression = 1- (kcpm (Th alone) / kcpm (Th + Treg). (B) Clone ThA2 cells (Th; lxl 04 per microwell) were seeded with clone Treg Al at the indicated Treg to Th ratios, in the presence or absence of MHGARP8 (MHG-8), anti- hTGF-β 1 mAb (clone I D 1 1 ) or an isotype control (mlgGl). Stimulation, measure of proliferation and calculation of suppression were performed as in A.
Figure 13. Forms and regions of GARP bound by anti-GARP mAbs. (A) Schematic representations of GARP and GARP/TGF-β complexes. Protein GARP is represented by a thick curved grey line. Numbers indicate amino-acid positions. TGF-β is represented with the Latency Associated Peptide (LAP) as thick black lines, and the mature TGF-β 1 peptide as thick straight grey lines. Thin black lines represent interchain disulfide bonds. (B) Classification of anti-hGARP mAbs based on their binding requirements. Figure 14. Three groups of anti-hGARP niAbs bind free GARP only, free GARP and GARP/TG F-B l complexes, or GARP/TGF-Bl complexes only, respectively. (A) Cell lysates of BW cells transfected with hGARP and hTGFB 1 were immunoprecipitated with the indicated anti-hGARP mAbs. Total lysates (BW+hGARP+hTGFB 1 or untransfected controls) and IP products were analysed by Western Blot with antibodies against hGARP (clone Plato- 1), LAP or the mature TGF-13 peptide. (B) Flow cytometry analyses of 293T cells, untransfected or transfected with hGARP, hTGFB 1 or both, and stained as indicated with anti-LAP-APC, biotinylated M UG mAbs and streptavidin-PE, clone Plato- 1 and anti-mIgG2b-AF647, or LHG mAbs and anti-hlgG l -PE.
Figure 15. Amino-acids of hGARP required for binding by M UG and LHG mAbs.
(A) Flow cytometry analyses of 293T cells transfected with plasmids encoding the HA- tagged mGARP/hGARP chimeras schematized on the left ( numbers represent amino- acid positions in hGARP). Cells were stained with biotinylated MHG mAbs and strepatvidin-PE, LHG mAbs and anti-hlgGl -PE, or anti-HA and anti-m lgG 1 -AF647. hTGFB 1 was co-transfected with mGARP/hGARP chimeras for the analyses of mAbs that bind liGARP/hTGF-B 1 complexes only (LHG-3, MHGARP8 (MHG-8), LHG- 10).
( B) As above, except that 293 T cells were transfected with plasmids encoding mutated forms of full-length HA-tagged hGARP. In each mutant, 3 amino-acids of hGARP were replaced by the 3 amino-acids found in mGARP, as illustrated in the alignment on the left (numbers represent amino-acid positions in hGARP).
Figure 16. Inhibition of human Treg function by anti-hGARP in vivo. (A) shows the protocol on day 0, the indicated groups of NSG mice received i.v. injections of human
PBMCs, in combination or not with human Tregs. (B) shows the results of 4 independent experiments ( 1 to IV), performed with cells from donors A, B or C, with the indicated numbers of mice per group (n). Disease onset is the day when mean disease score becomes >1, and is indicated for 3 experimental groups in which mice were grafted with PBMCs only (group a), PBMCs and Tregs (group b), or PBMCs and Tregs and treated with MHGARP8 (MHG-8) (group c). (C) Detailed results from experiment IV, showing the evolution of mean disease score (left) and survival curves (right) in the indicated groups of mice. Statistical significance of differences between groups b (PBMCs + Tregs) and c (PBMCs + Tregs + MHG-8) were calculated using 2- way Anova analysis for progression of disease scores (p = 0.0001), and a Log-rank (Mantel-Cox) test for survival (p 0.0027).
Figure 17. Anti-hGARP niAbs that block TGF-β production inhibit suppression by human Tregs in vivo. Experiment performed according to protocol shown in Figure 16, part A. Top graph shows progression of disease scores (means per group + sem), bottom graph shows survival.
Figure 18. Inhibition of human Tregs by MHG-8 increases cytokine production and T cell proliferation in vivo.
NSG mice injected as in Fig. 16, part A were sacrificed 20 days after cell transfer. (A) Serum levels of human cytokines were measured in a multiplex bead assay. (B-C) Numbers and proportions of the indicated human cells in the spleens were evaluated by flow cytometry. Squares and triangles represent individual mice (N = 4-5 mice per group). Circles represent numbers or proportions of the corresponding human cells injected per mouse on day 0. Statistical significance between groups was determined with a Student's t-test. P values are indicated above brackets. Data from one experiment representative of two.
Figure 19. impact of mutations in GARP or TGF-B l on the binding of anti-GARP or anti-LAP antibodies to GARP/TGF-β 1 complexes.
(A) Mean percent residual binding of MHG-8 to GARP/TGF-B 1 complexes containing the mutations indicated below the bar graphs. (B) Mean percent residual binding of LHG- 10 to GARP/TGF-B I complexes containing the mutations indicated below the bar graphs. (C) Mean percent residual binding of MHG-6 to GARP/TGF-B 1 complexes containing the mutations indicated below the bar graphs. Ratios of EC50 were not measured for MHG-6. ( D) Mean percent residual binding of an anti-LAP antibody. Ratios of EC 50 were not measured for anti-LAP to GARP/TGF-β 1 complexes containing the mutations indicated below the bar graphs, n : number of independent experiments. The number indicated below each mutation corresponds to the ratio between the EC 50 of MHG-8 binding to the mutant and the EC 50 of MHG-8 binding to the WT. Mutations with a ratio >2 are considered to decrease the avidity for binding by MHG-8. NE: non evaluable (residual binding < 10%); nt: not tested. Figure 20. Impact of mutations in GARP or TGF-B l on the inhibitory activity of MHG-8 and LHG- 10.
(A) Residual inhibitory activity of MHG-8 on the indicated mutated forms of GARP or TGF-Bl (means of triplicates). Mutations that are underlined induced complete loss of binding by MHG-8, as illustrated in Figure 19, part A. (B) Residual inhibitory activity of LHG- 10 on the indicated mutated forms of GARP or TGF-Bl (means of triplicates). Mutations that are underlined induced complete loss of binding by LHG-10, as illustrated in Figure 19, part B. (C) Residual inhibitory activity of the control anti-TGF- Bl neutralizing antibody on the indicated mutated forms of GARP or TGF-Bl (means of triplicates). Error bars correspond to standard deviation. Negative values were brought to zero.
DETAILED DESCRIPTION
DEFINITIONS
In the present invention, the following terms have the following meanings: "Antibody" or "Immunoglobulin" - As used herein, the term "immunoglobulin" includes a polypeptide having a combination of two heavy and two light chains whether or not it possesses any relevant specific immunoreactivity. "Antibodies" refers to such assemblies which have significant known specific immunoreactive activity to an antigen of interest (e.g. human GARP). The term "GARP antibodies" is used herein to refer to antibodies which exhibit immunological specificity for human GARP protein. As explained elsewhere herein, "specificity" for human GARP does not exclude cross- reaction with species homologues of GARP. In addition, it also does not exclude antibodies recognising an epitope spanning GARP protein residues and TGF-β protein residue. Antibodies and immunoglobulins comprise light and heavy chains, with or without an interchain covalent linkage between them. Basic immunoglobulin structures in vertebrate systems are relatively well understood. The generic term "immunoglobulin" comprises five distinct classes of antibody that can be distinguished biochemically. All five classes of antibodies are within the scope of the present invention, the following discussion will generally be directed to the IgG class of immunoglobulin molecules. With regard to IgG, immunoglobulins comprise two identical light polypeptide chains of molecular weight approximately 23,000 Daltons, and two identical heavy chains of molecular weight 53,000-70,000 Daltons. The four chains are joined by disulfide bonds in a "Y" configuration wherein the light chains bracket the heavy chains starting at the mouth of the "Y" and continuing through the variable region. The light chains of an antibody are classified as either kappa or lambda ( [K], [λ]). Each heavy chain class may be bonded with either a kappa or lambda light chain. In general, the light and heavy chains are covalently bonded to each other, and the "tail" regions of the two heavy chains are bonded to each other by covalent disulfide linkages or non-covalent linkages w hen the immunoglobulins are generated either by hybridomas, B cells or genetically engineered host cells. In the heavy chain, the amino acid sequences run from an Ni-terminus at the forked ends of the Y configuration to the C-terminus at the bottom of each chain. Those skilled in the art will appreciate that heavy chains are classified as gamma, mu, alpha, delta, or epsilon (γ, μ, α, δ, ε) with some subclasses among them (e.g. , yl - γ4). It is the nature of this chain that determines the "class" of the antibody as IgG, igM, IgA IgG, or IgE, respectively. The immunoglobulin subclasses (isotypes) e.g. , IgGl, IgG2, IgG , IgG4, IgAl, etc. are well characterized and are known to confer functional specialization. Modified versions of each of these classes and isotypes are readily discemable to the skilled artisan in view of the instant disclosure and, accordingly, are within the scope of the instant invention. As indicated above, the variable region of an antibody allows the antibody to selectively recognize and speci ically bind epitopes on antigens. That is, the VL domain and VI I domain of an antibody combine to form the variable region that defines a three dimensional antigen binding site. This quaternary antibody structure forms the antigen binding site present at the end of each arm of the Y. More specifical ly, the antigen binding site is defined by three complementarity determining regions (CDRs) on each of the \T 1 and VL chains. "An isolated antibody" - As used herein, an "isolated antibody" is one that has been separated and/or recovered from a component of its natural environment. Contaminant components of its natural environment are materials that would interfere with diagnostic or therapeutic uses of the antibody, and may include enzymes, hormones, and other proteinaceous or non proteinaceous components. In preferred embodiments, the antibody is purified : (1) to greater than 95% by weight of antibody as determined by the Lowry method, and most preferably more than 99% by weight; (2) to a degree sufficient to obtain at least 15 residues of N-terminal or internal amino acid sequence by use of a spinning cup sequenator; or (3) to homogeneity as shown by SDS-PAGE under reducing or non-reducing conditions and using Coomassie blue or, preferably, silver staining. An isolated antibody includes the antibody in situ within recombinant cells since at least one component of the antibody' s natural environment will not be present. Ordinarily, however, an isolated antibody will be prepared by at least one purification step. "Affinity variants" - As used herein, the term ""affinity variant" refers to a variant antibody which exhibits one or more changes in amino acid sequence compared to a reference GARP antibody, wherein the affinity variant exhibits an altered affinity for the human GARP protein or GARP/TGF-β complex in comparison to the reference antibody. Typically, affinity variants will exhibit an improved affinity for human GARP or human G.ARP/TGF-β complex, as compared to the reference GARP antibody. The improvement may be a lower KD for human GARP, a faster off- rate for human GARP, or an alteration in the pattern of cross-reactivity with non-human GARP homologues. Affinity variants typically exhibit one or more changes in amino acid sequence in the CDRs, as compared to the reference GARP antibody. Such substitutions may result in replacement of the original amino acid present at a given position in the CDRs with a different amino acid residue, which may be a naturally occurring amino acid residue or a non-naturally occurring amino acid residue. The amino acid substitutions may be conservative or non-conservative.
"Binding Site" - As used herein, the term ""binding site" comprises a region of a polypeptide which is responsible for selectiv ely binding to a target antigen of interest (e.g. human GARP). Binding domains or binding regions comprise at least one binding site. Exemplary binding domains include an antibody variable domain. The antibody molecules of the invention may comprise a single antigen binding site or multiple (e.g., two, three or four) antigen binding sites.
"Conservative amino acid substitution" - As used herein, a "conservative amino acid substitution" is one in which the amino acid residue is replaced w ith an amino acid residue having a similar side chain. Families of amino acid residues having similar side chains have been defined in the art, including basic side chains (e.g., lysine, arginine, histidine), acidic side chains (e.g., aspartic acid, glutamic acid ), uncharged polar side chains (e.g., glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine), nonpolar side chains (e.g., alanine, valine, leucine, isoleucine, proline, phenylalanine, methionine, tryptophan), beta- branched side chains (e.g., threonine, valine, isoleucine) and aromatic side chains (e.g., tyrosine, phenylalanine, tryptophan, histidine). Thus, a nonessential amino acid residue in an immunoglobulin polypeptide may be replaced with another amino acid residue from the same side chain family. In another embodiment, a string of amino acids can be replaced with a structurally similar string that differs in order and/or composition of side chain family members.
"Chimeric" - As used herein, a "chimeric" protein comprises a first amino acid sequence linked to a second amino acid sequence with which it is not naturally linked in nature. The amino acid sequences may normally exist in separate proteins that are brought together in the fusion polypeptide or they may normally exist in the same protein but are placed in a new arrangement in the fusion polypeptide. A chimeric protein may be created, for example, by chemical synthesis, or by creating and translating a polynucleotide in which the peptide regions are encoded in the desired relationship. Exemplary chimeric GARP antibodies include fusion proteins comprising camelid-derived VH and VL domains, or humanised variants thereof, fused to the constant domains of a human antibody, e.g. human IgG I , IgG2, IgG3 or IgG4.
"CDR" - As used herein, the term "CDR" or "complementarity determining region" means the non-contiguous antigen combining sites found within the variable region of both heavy and light chain polypeptides. These particular regions have been described by Kabat et al., J. Biol. Chem. 252, 6609-6616 ( 1977) and Kabat et al.. Sequences of protein of immunological interest. (1991), by Chothia et al ., J. Mol. Biol. 196:90 1 -9 1 7 (1987), and by MacCallum et al, J. Mol. Biol. 262:732-745 (1996) where the definitions include overlapping or subsets of amino acid residues when compared against each other. The amino acid residues which encompass the CDRs as defined by each of the above cited references are set forth for comparison. Preferably, the term "CDR" is a CDR as defined by Kabat based on sequence comparisons.
Table 1 : CDR definitions
Figure imgf000020_0001
(1) Residue numbering follows the nomenclature of Kabat et al., supra
(2) Residue numbering follows the nomenclature of Chothia et al., supra
(3) Residue numbering follows the nomenclature of MacCallum et al, supra
"CH2 domain" - As used herein the term "CH2 domain" includes the region of a heavy chain molecule that extends, e.g. , from about residue 244 to residue 360 of an antibody using conventional numbering schemes (residues 244 to 360, Kabat numbering system; and residues 231-340, EU numbering system, Kabat EA et al. Sequences of Proteins of Immunological Interest. Bethesda, US Department of Health and Human Services, NIH. 1991 ). The CH2 domain is unique in that it is not closely paired with another domain. Rather, two N-linked branched carbohydrate chains are interposed between the tw o CH2 domains of an intact native IgG molecule. It is also well documented that the CH3 domain extends from the CH2 domain to the C-terminal of the IgG molecule and comprises approximately 108 residues.
"Camelid- Derived" - In certain preferred embodiments, the GARP antibody molecules of the invention comprise framework amino acid sequences and/or CDR amino acid sequences derived from a camelid conventional antibody raised by active immunization of a camelid with GARP antigen. However, GARP antibodies comprising camelid- derived amino acid sequences may be engineered to comprise framework and/or constant region sequences derived from a human amino acid sequence or other non- camelid mammalian species. For example, a human or non-human primate framework region, heav y chain region, and/or hinge region may be included in the subject GARP antibodies. In an embodiment, one or more non-camelid amino acids may be present in the framework region of a "camelid-derived" GARP antibody, e.g. , a camelid framework amino acid sequence may comprise one or more amino acid mutations in which the corresponding human or non-human primate amino acid residue is present. Moreover, camelid-derived VH and V'L domains, or humanized variants thereof, may be linked to the constant domains of human antibodies to produce a chimeric molecule, as extensively described elsewhere herein.
"Derived From" - As used herein the term "derived from" a designated protein (e.g. a GARP antibody or antigen-binding fragment thereof) refers to the origin of the polypeptide. In an embodiment, the polypeptide or amino acid sequence which is derived from a particular starting polypeptide is a CDR sequence or sequence related thereto. In an embodiment, the amino acid sequence hich is deriv ed from a particular starting polypeptide is not contiguous. For example, in an embodiment, one, two, three, four, fiv e, or six CDRs are deriv ed from a starting antibody. In an embodiment, the polypeptide or amino acid sequence which is derived from a particular starting polypeptide or amino acid sequence has an amino acid sequence that is essentially identical to that of the starting sequence, or a region thereof wherein the region consists of at least of at least 3-5 amino acids, 5-10 amino acids, at least 10-20 amino acids, at least 20-30 amino acids, or at least 30-50 amino acids, or which is otherwise identifiable to one of ordinary skill in the art as having its origin in the starting sequence. In an embodiment, the one or more CDR sequences derived from the starting antibody are altered to produce variant CDR sequences, e.g. affinity variants, wherein the variant CDR sequences maintain GARP binding activity.
"Diabodies" - As used herein, the term "diabodies" refers to small antibody fragments prepared by constructing sFv fragments (see sFv paragraph) with short linkers (about 5- 10 residues) between the VI I and VL domains such that inter-chain but not intra-chain pairing of the V domains is achieved, resulting in a biv alent fragment, i.e. , fragment having two antigen-binding sites. Bispecific diabodies are heterodimers of two "crosso ver" sFv fragments in which the VH and VL domains of the two antibodies are present on different polypeptide chains. Diabodies are described more fully in, for example, EP 404,097; WO 93/1 1 161 ; and Holliger et al ., Proc. Natl. Acad. Sci., 90:6444-6448 (1993).
"Engineered" - As used herein the term ""engineered" includes manipulation of nucleic acid or polypeptide molecules by synthetic means (e.g. by recombinant techniques, in vitro peptide synthesis, by enzymatic or chemical coupling of peptides or some combination of these techniques). Preferably, the antibodies of the invention are engineered, including for example, humanized and/or chimeric antibodies, and antibodies which have been engineered to improve one or more properties, such as antigen binding, stability/half-life or effector function.
"Epitope" - As used herein, the term ""epitope" refers to a specific arrangement of amino acids located on a peptide or protein or proteins to which an antibody binds. Epitopes often consist of a chemical ly active surface grouping of molecules such as amino acids or sugar side chains, and have specific three dimensional structural characteristics as well as specific charge characteristics. Epitopes can be linear or conformational, i.e. , involving two or more sequences of amino acids in various regions of the antigen that may not necessarily be contiguous.
"Framework region" - The term "framework region" or "FR region" as used herein, includes the amino acid residues that are part of the variable region, but are not part of the CDRs (e.g. , using the Kabat definition of CDRs). Therefore, a variable region framework is between about 100- 120 amino acids in length but includes only those amino acids outside of the CDRs. For the specific example of a heavy chain variable region and for the CDRs as defined by Kabat et al., framework region I corresponds to the domain of the variable region encompassing amino acids 1-30; framework region 2 corresponds to the domain of the variable region encompassing amino acids 36-49; framework region 3 corresponds to the domain of the variable region encompassing amino acids 66-94, and framework region 4 corresponds to the domain of the variable region from amino acids 103 to the end of the variable region. The framework regions for the light chain are similarly separated by each of the light claim variable region CDRs. Similarly, using the definition of CDRs by Chothia et al. or McCallum et al. the framework region boundaries are separated by the respective CDR termini as described above. In preferred embodiments the CDRs are as defined by Kabat. In naturally occurring antibodies, the six CDRs present on each monomeric antibody are short, non- contiguous sequences of amino acids that are specifically positioned to form the antigen binding site as the antibody assumes its three dimensional configuration in an aqueous environment. The remainder of the heavy and light variable domains show less inter- molecular variability in amino acid sequence and are termed the framework regions. The framework regions largely adopt a [betaj-sheet conformation and the CDRs form loops which connect, and in some cases form part of, the [beta]-sheet structure. Thus, these framework regions act to form a scaffold that provides for positioning the six CDRs in correct orientation by inter-chain, non-covalent interactions. The antigen binding site formed by the positioned CDRs defines a surface complementary to the epitope on the immunoreactive antigen. This complementary surface promotes the non- covalent binding of the antibody to the immunoreactive antigen epitope. The position of CDRs can be readily identified by one of ordinary skill in the art.
"Fragment" - As used herein, the term "fragment" refers to a part or region of an antibody or antibody chain comprising fewer amino acid residues than an intact or complete antibody or antibody chain. The term "antigen-binding fragment" refers to a polypeptide fragment of an immunoglobulin or antibody that binds antigen or competes with intact antibody (i.e. , with the intact antibody from which they were derived) for antigen binding (i.e. , specific binding to human GARP). As used herein, the term "fragment" of an antibody molecule includes antigen-binding fragments of antibodies, for example, an antibody light chain variable domain (VL), an antibody heavy chain variable domain (VH), a single chain antibody (scFv), a F(ab')2 fragment, a Fab fragment, an Fd fragment, an Fv fragment, a single domain antibody fragment (DAb), a one-armed (monovalent) antibody, diabodies or any antigen-binding molecule formed by combination, assembly or conjugation of such antigen binding fragments. Fragments can be obtained, e.g. , via chemical or enzymatic treatment of an intact or complete antibody or antibody chain or by recombinant means. "Fv" - As used herein, the term "Fv" is the minimum antibody fragment that contains a complete antigen-recognition and -binding site. This fragment consists of a dimer of one heavy- and one light-chain variable region domain in tight, non-covalent association. From the folding of these two domains emanate six hypervariable loops (three loops each from the H and L chain) that contribute the amino acid residues for antigen binding and confer antigen binding specificity to the antibody. However, ev en a single variable domain (or half of an Fv comprising only three CDRs specific for an antigen) has the ability to recognize and bind antigen, although at a lower affinity than the entire binding site. "Heavy chain region" - As used herein, the term "heav y chain region" includes amino acid sequences derived from the constant domains of an immunoglobulin heav y chain. A polypeptide comprising a heavy chain region comprises at least one of: a CHI domain, a hinge (e.g., upper, middle, and/or lower hinge region) domain, a CH2 domain, a CH3 domain, or a v ariant or fragment thereof, in an embodiment, a binding molecule of the invention may comprise the Fc region of an immunoglobulin heavy chain (e.g., a hinge portion, a CH2 domain, and a CH3 domain). In another embodiment, a binding molecule of the invention lacks at least a region of a constant domain (e.g., all or part of a CI 12 domain). In certain embodiments, at least one, and preferably all, of the constant domains are derived from a human immunoglobulin heavy chain. For example, in one preferred embodiment, the heavy chain region comprises a fully human hinge domain. In other preferred embodiments, the heavy chain region comprising a fully human Fc region (e.g., hinge, CH2 and CH3 domain sequences from a human immunoglobulin ). In certain embodiments, the constituent constant domains of the heavy chain region are from different immunoglobulin molecules. For example, a heavy chain region of a polypeptide may comprise a CH2 domain deriv ed from an IgGl molecule and a hinge region derived from an IgG3 or IgG4 molecule. In other embodiments, the constant domains are chimeric domains comprising regions of different immunoglobulin molecules. For example, a hinge may comprise a first region from an IgGl molecule and a second region from an IgG3 or IgG4 molecule. As set forth abov e, it will be understood by one of ordinary skill in the art that the constant domains of the heavy chain region may be modified s ch that they vary in amino acid sequence from the naturally occurring (wild-type) immunoglobulin molecule. That is, the polypeptides of the invention disclosed herein may comprise alterations or modifications to one or more of the heavy chain constant domains (CHI, hinge, CH2 or CH3) and/or to the light chain constant domain (CL). Exemplary modifications include additions, deletions or substitutions of one or more amino acids in one or more domains.
"Hinge region" - As used herein, the term "hinge region" includes the region of a heavy chain molecule that joins the CHI domain to the CH2 domain. This hinge region comprises approximately 25 residues and is flexible, thus allowing the two N -terminal antigen binding regions to move independently. Hinge regions can be subdiv ided into three distinct domains: upper, middle, and lower hinge domains (Roux et al . J. Immunol. 1998 16 1 :4083).
The terms "hypervariable loop" and "complementarity determining region" are not strictly synonymous, since the hypervariable loops (HVs) are defined on the basis of structure, whereas complementarity determining regions (CDRs) are defined based on sequence variability ( Kabat et al , Sequences of Proteins of Immunological Interest, 5th Ed. Public Health Service, National Institutes of Health, Bethesda, Ml)., 1983) and the limits of the HVs and the CDRs may be different in some VH and VL domains. The CDRs of the VL and VH domains can typically be defined as comprising the following amino acids: residues 24-34 (CDRL 1 ), 50-56 (CDRL2) and 89-97 ( CDRL3 ) in the light chain variable domain, and residues 3 1 -35 or 3 1 -3 b (CDRH 1 ), 50-65 (CDRH2) and 95- 102 (CDRH3 ) in the heav y chain variable domain; ( Kabat et al., Sequences of Proteins of Immunological Interest, 5th Ed. Public Health Service, National Institutes of Health, Bethesda, MD. (1991)). Thus, the H Vs may be comprised within the corresponding CDRs and references herein to the "hyperv ariable loops" of VI I and VL domains should be interpreted as also encompassing the corresponding CDRs, and vice versa, unless otherwise indicated. The more highly conserved regions of variable domains are called the framework region (FR), as defined below. The v ariable domains of native heavy and light chains each comprise four FRs (FRl, FR2, FR3 and FR4, respectively), largely adopting a [beta]-sheet configuration, connected by the three hypervariable loops. The hypervariable loops in each chain are held together in close proximity by the FRs and, with the hypervariable loops from the other chain, contribute to the formation of the antigen-binding site of antibodies. Structural analysis of antibodies revealed the relationship between the sequence and the shape of the binding site formed by the complementarity determining regions (Chothia et ai, J. Mol. Biol. 227: 799-817 (1992)); Tramontane et al., J. Mol. Biol, 215 : 175-182 (1990)). Despite their high sequence variability, five of the six loops adopt just a small repertoire of main-chain conformations, called "canonical structures". These conformations are first of all determined by the length of the loops and secondly by the presence of key residues at certain positions in the loops and in the framework regions that determine the conformation through their packing, hydrogen bonding or the ability to assume unusual main-chain conformations.
"Humanising substitutions" - As used herein, the term "humanising substitutions" refers to amino acid substitutions in which the amino acid residue present at a particular position in the VH or VL domain antibody GA RP antibody (for example a camelid- derived GARP antibody) is replaced with an amino acid residue which occurs at an equivalent position in a reference human VH or VL domain . The reference human VH or VL domain may be a VH or VL domain encoded by the human germ line, in which case the substituted residues may be referred to as "germlining substitutions". H uman i si ng/ge m 1 i n i ng substitutions may be made in the framework regions and/or the CDRs of a GARP antibody, defined herein.
"High human homology" - An antibody comprising a heavy chain variable domain ( VH ) and a light chain variable domain (VL) will be considered as having high human homology if the VH domains and the VL domains, taken together, exhibit at least 90% amino acid sequence identity to the closest matching human germline VH and VL sequences. Antibodies having high human homology may include antibodies comprising VH and VL domains of native non-human antibodies which exhibit sufficiently high % sequence identity human germline sequences, including for example antibodies comprising VH and VL domains of camelid conventional antibodies, as well as engineered, especially humanized, variants of such antibodies and also "fully human" antibodies. In an embodiment the VH domain of the antibody with high human homology may exhibit an amino acid sequence identity or sequence homology of 80% or greater with one or more human VH domains across the framework regions FR l , FR2, FR3 and FR4. In other embodiments the amino acid sequence identity or sequence homology between the VH domain of the polypeptide of the invention and the closest matching human germline VH domain sequence may be 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100%. In an embodiment the VH domain of the antibody with high human homology may contain one or more(e.g. 1 to 10) amino acid sequence mis-matches across the framework regions FR1, FR2, FR3 and FR4, in comparison to the closest matched human VH sequence. In another embodiment the VL domain of the antibody with high human homology may exhibit a sequence identity or sequence homology of 80% or greater with one or more human VL domains across the framework regions FRl, FR2, FR3 and FR4 In other embodiments the amino acid sequence identity or sequence homology between the VL domain of the polypeptide of the invention and the closest matching human germline VL domain sequence may be 85% or greater 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% .
In an embodiment the VL domain of the antibody with high human homology may contain one or more (e.g. 1 to 10) amino acid sequence mis-matches across the framework regions FRl, FR2, FR3 and FR4, in comparison to the closest matched human VL sequence. Before analyzing the percentage sequence identity between the antibody with high human homology and human germline VH and VL, the canonical folds may be determined, w hich allow the identification of the family of human germline segments with the identical combination of canonical folds for H 1 and H2 or L 1 and L2 (and L3). Subsequently the human germline family member that has the highest degree of sequence homology with the variable region of the antibody of interest is chosen for scoring the sequence homology. The determination of Chothia canonical classes of hypervariable loops L I , L2, L3, I I 1 and H2 can be performed ith the bioinformatics tools publicly available on webpage www . b i o i n f . org . u k/ab s/ch o t h i a . h t m 1. page . The output of the program shows the key residue requirements in a data file. In these data files, the key residue positions are shown with the allowed amino acids at each position. The sequence of the variable region of the antibody of interest is given as input and is first aligned with a consensus antibody sequence to assign the Kabat numbering scheme. The analysis of the canonical folds uses a set of key residue templates derived by an automated method developed by Martin and Thornton (Martin et al., J. Mol. Biol. 263 :800-815 (1996)). With the particular human germline V segment known, which uses the same combination of canonical folds for H 1 and H2 or L 1 and L2 (and L3), the best matching family member in terms of sequence homology can be determined. With bioinformatics tools the percentage sequence identity between the VH and VL domain framework amino acid sequences of the antibody of interest and corresponding sequences encoded by the human germline can be determined, but actually manual alignment of the sequences can be applied as well. Human immunoglobulin sequences can be identified from several protein data bases, such as X Base ( http ://vbase. mrc-cpe. cam ac . uk/ ) or the Pluckthun/Honegger database (http://'wwiw.bioc.unizh.ch,/antibody/Sequeiices/Germline s). To compare the human sequences to the V regions of VH or VL domains in an antibody of interest a sequence alignment algorithm such as available via websites like www. expasy.ch/tools/# align can be used, but also manual alignment with the limited set of sequences can be performed. Human germline light and heavy chain sequences of the families with the same combinations of canonical folds and with the highest degree of homology with the framework regions 1, 2, and 3 of each chain are selected and compared with the variable region of interest; also the FR4 is checked against the human germline JH and JK or JL regions. Note that in the calculation of overall percent sequence homology the residues of FR 1 , FR2 and FR3 are evaluated using the closest match sequence from the human germline family with the identical combination of canonical folds. Only residues different from the closest match or other members of the same family with the same combination of canonical folds are scored (NB - excluding any primer-encoded differences). However, for the purposes of humanization, residues in framework regions identical to members of other human germline families, which do not have the same combination of canonical folds, can be considered "human", despite the fact that these are scored "negative" according to the stringent conditions described above. This assumption is based on the "mix and match" approach for humanization, in which each of FR 1 , FR2, FR3 and FR4 is separately compared to its closest matching human germline sequence and the humanized molecule therefore contains a combination of different FRs as was done by Qu and colleagues (Qu et al., Clin. Cancer Res. 5 :3095-3100 (1999)) and Ono and colleagues (Ono et al., Mol. Immunol. 36:387- 395 (1999)). The boundaries of the individual framework regions may be assigned using the I MOT numbering scheme, which is an adaptation of the numbering scheme of Chothia (Lefranc et al., NAR 27: 209-212 (1999); http://im.gt.cines.fr). Antibodies with high human homology may comprise hypervariable loops or CDRs having human or human-like canonical folds, as discussed in detail below. In an embodiment at least one hypervariable loop or CDR in either the VH domain or the VL domain of the antibody with high human homology may be obtained or derived from a VH or VL domain of a non-human antibody, for example a conventional antibody from a species of Camelidae, yet exhibit a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies. It is well established in the art that although the primary amino acid sequences of hyperv ariable loops present in both VH domains and VL domains encoded by the human germ line are, by definition, highly variable, all hypervariable loops, except CDR H3 of the VH domain, adopt only a few distinct structural conformations, termed canonical folds (Chothia et al., J. Mol. Biol. 196:901-917 (1987); Tramontano et al. Proteins 6:382- 94 (1989)), hich depend on both the length of the hypervariable loop and presence of the so-called canonical amino acid residues ( Chothia et al., J. Mol. Biol. 1 96:90 1 - 1 7 (1987)). Actual canonical structures of the hypervariable loops in intact VH or VL domains can be determined by structural analysis (e.g. X-ray crystallography), but it is also possible to predict canonical structure on the basis of key amino acid residues which are characteristic of a particular structure (discussed further below). In essence, the specific pattern of residues that determines each canonical structure forms a "signature" w hich enables the canonical structure to be recognised in hypervariable loops of a VH or VL domain of unknown structure; canonical structures can therefore be predicted on the basis of primary amino acid sequence alone. The predicted canonical fold structures for the hypervariable loops of any given VH or VL sequence in an antibody with high human homology can be analysed using algorithms which are publicly available from www.bioinf.org.uk/abs/chothia.html, www .biochem.ucl.ac uk/ - martin/antibodies. html and wwv.bioc.unizh.ch/antibody/Sequences/Germlines/Vbase_hVk.html. These tools permit query VH or VL sequences to be aligned against human VH or VL domain sequences of known canonical structure, and a prediction of canonical structure made for the hypervariable loops of the query sequence. In the case of the VH domain, HI and H2 loops may be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if at least the first, and preferable both, of the following criteria are ful illed:
1 . An identical length, determined by the number of residues, to the closest matching human canonical structural class.
2. At least 33% identity, preferably at least 50% identity with the key amino acid residues described for the corresponding human HI and H2 canonical structural classes (note for the purposes of the foregoing analysis the H 1 and H2 loops are treated separately and each compared against its closest matching human canonical structural class). The foregoing analysis relies on prediction of the canonical structure of the H 1 and H2 loops of the antibody of interest, if the actual structures of the HI and H2 loops in the antibody of interest are known, for example based on X-ray crystallography, then the H I and H2 loops in the antibody of interest may also be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if the length of the loop differs from that of the closest matching human canonical structural class (typical ly by +1 or +2 amino acids) but the actual structure of the H I and H2 loops in the antibody of interest matches the structure of a human canonical fold. Key amino acid residues found in the human canonical structural classes for the first and second hypervariable loops of human VH domains (HI and H2) are described by Chothia et al., J. Mol. Biol. 227:799-817 (1992), the contents of which are incorporated herein in their entirety by reference. In particular. Table 3 on page 802 of Chothia et al , which is specifically incorporated herein by reference, lists preferred amino acid residues at key sites for H I canonical structures found in the human germline, whereas Table 4 on page 803, also specifically incorporated by reference, lists preferred amino acid residues at key sites for CDR H2 canonical structures found in the human germline. In an embodiment, both HI and H2 in the VH domain of the antibody with high human homology exhibit a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies. Antibodies with high human homology may comprise a VH domain in which the hypervariable loops H 1 and H2 form a combination of canonical fold structures which is identical to a combination of canonical structures known to occur in at least one human germline VH domain. It has been observed that only certain combinations of canonical fold structures at H I and H2 actually occur in V I 1 domains encoded by the human germline. In an embodiment H I and H2 in the VH domain of the antibody with high human homology may be obtained from a VH domain of a non-human species, e.g. a Camelidae species, yet form a combination of predicted or actual canonical fold structures hich is identical to a combination of canonical fold structures known to occur in a human germline or somatically mutated VH domain . In non-limiting embodiments H 1 and I I 2 in the VH domain of the antibody with high human homology may be obtained from a VH domain of a non-human species, e.g. a Camelidae species, and form one of the following canonical fold combinations: 1 - 1 , 1 -2, 1 -3, 1 -6, 1 -4, 2- 1, 3-1 and 3- 5. An antibody with high human homology may contain a V I I domain which exhibits both high sequence identity/sequence homology with human VH, and which contains hypervariable loops exhibiting structural homology with human VI I. It may be advantageous for the canonical folds present at HI and H2 in the VH domain of the antibody with high human homology, and the combination thereof, to be "correct" for the human VH germline sequence which represents the closest match w ith the VH domain of the antibody with high human homology in terms of overall primary amino acid sequence identity. By way of example, if the closest sequence match is with a human germline VH3 domain, then it may be advantageous for H 1 and H2 to form a combination of canonical folds which also occurs naturally in a human VH3 domain. This may be particularly important in the case of antibodies w ith high human homology which are derived from non-human species, e.g. antibodies containing VH and VL domains which are derived from camelid conventional antibodies, especially antibodies containing humanised camelid VH and VL domains. Thus, in an embodiment the VH domain of the GARP antibody w ith high human homology may exhibit a sequence identity or sequence homology of 80% or greater, 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% with a human VH domain across the framework regions FR I , FR2 , FR3 and FR4, and in addition H 1 and 112 in the same antibody are obtained from a non-human VH domain (e.g. derived from a Camelidae species), but form a combination of predicted or actual canonical fold structures which is the same as a canonical fold combination known to occur naturally in the same human VH domain, in other embodiments, LI and L2 in the VL domain of the antibody with high human homology are each obtained from a VL domain of a non-human species (e.g. a camel id-derived VL domain), and each exhibits a predicted or actual canonical fold structure which is substantially identical to a canonical fold structure which occurs in human antibodies. As with the VH domains, the hypervariable loops of VL domains of both VLambda and V appa types can adopt a limited number of conformations or canonical structures, determined in part by length and also by the presence of key amino acid residues at certain canonical positions. Within an antibody of interest having high human homology, L 1 , L2 and L3 loops obtained from a VL domain of a non-human species, e.g. a Camel idae species, may be scored as having a canonical fold structure "substantially identical" to a canonical fold structure known to occur in human antibodies if at least the first, and preferable both, of the following criteria are fulfilled:
1. An identical length, determined by the number of residues, to the closest matching human structural class.
2. At least 33% identity, preferably at least 50% identity with the key amino acid residues described for the corresponding human L 1 or L2 canonical structural classes, from either the VLambda or the V Kappa repertoire (note for the purposes of the foregoing analysis the L 1 and L2 loops are treated separately and each compared against its closest matching human canonical structural class). The foregoing analysis relies on prediction of the canonical structure of the L I , L2 and L3 loops in the VL domain of the antibody of interest. If the actual structure of the L 1 , L2 and L3 loops is known, for example based on X-ray crystallography, then L 1 , 1.2 or L3 loops derived from the antibody of interest may also be scored as having a canonical fold structure "substantial ly identical" to a canonical fold structure known to occur in human antibodies if the length of the loop differs from that of the closest matching human canonical structural class (typically by +1 or +2 amino acids) but the actual structure of the Camelidae loops matches a human canonical fold. Key amino acid residues found in the human canonical structural classes for the CDRs of human VLambda and V Kappa domains are described by Morea et al. Methods, 20: 267-279 (2000) and Martin et al.. J. Mol. Biol., 263 :800-815 (1996). The structural repertoire of the human V appa domain is also described by Tomlinson et al. EM BO J. 14:4628-4638 (1995), and that of the VLambda domain by Williams et al. J. Mol. Biol., 264:220-232 (1996). The contents of all these documents are to be incorporated herein by reference. LI and L2 in the VL domain of an antibody with high human homology may form a combination of predicted or actual canonical fold structures which is identical to a combination of canonical fold structures known to occur in a human germline VL domain. In non- limiting embodiments LI and L2 in the VLambda domain of an antibody with high human homology (e.g. an antibody containing a camel id-derived VL domain or a humanised variant thereof) may form one of the following canonical fold combinations: 1 1 -7, 13-7(A,B,C), 14-7( A,B), 1 2- 1 1 , 14- 1 1 and 12- 12 (as defined in Williams et al. J. Mol. Biol. 264:220 -32 (1996) and as shown on http://www.bioc.uzh h/antibody/Sequences/Germlines/VBase_hVL.html). In non- limiting embodiments L 1 and L2 in the Vkappa domain may form one of the following canonical fold combinations: 2- 1, 3- 1 , 4- 1 and 6- 1 (as defined in Tomlinson et al. EMBO J . 14:4628-38 ( 1995 ) and as shown on http://www.bioc.uzh.ch/antibody/Sequences/Germlines/VBase _hVK.html).
In a further embodiment, all three of L 1 , L2 and L3 in the VL domain of an antibody with high human homology may exhibit a substantial ly human structure. It is preferred that the VL domain of the antibody with high human homology exhibit both high sequence identity/sequence homology ith human VL, and also that the hypervariable loops in the VL domain exhibit structural homology with human VL.
In an embodiment, the VL domain of the GARP antibody with high human homology may exhibit a sequence identity of 80% or greater, 85% or greater, 90% or greater, 95% or greater, 97% or greater, or up to 99% or even 100% with a human VL domain across the framework regions FR I , FR2 , FR3 and FR4, and in addition hypervariable loop L 1 and hypervariable loop L2 may form a combination of predicted or actual canonical fold structures which is the same as a canonical fold combination known to occur naturally in the same human VL domain. It is, of course, envisaged that VH domains exhibiting high sequence identity/sequence homology with human VH, and also structural homology w ith hyperv ariable loops of human VH will be combined with VL domains exhibiting high sequence identity/sequence homology with human VL, and also structural homology with hypervariable loops of human VL to provide antibodies with high human homology containing VH/VL pairings (e.g. camel id-derived VH/VL pairings) with maximal sequence and structural homology to human-encoded VH/VL pairings.
"Inimunospecific", "specific for" or to "specifically bind" - As used herein, an antibody is said to be "immunospecific", "specific for" or to "specifically bind" an antigen if it reacts at a detectable level with the antigen, preferably ith an affinity constant, Ka, of greater than or equal to about 104 M_1, or greater than or equal to about l O5 M"1 , greater than or equal to about 106 M"1, greater than or equal to about 107 M"1 , or greater than or equal to 108 M"1 , or greater than or equal to 109 M"1, or greater than or equal to 101ύ M"1. Affinity of an antibody for its cognate antigen is also commonly expressed as a dissociation constant Kd, and in certain embodiments, an antibody specifically binds to antigen if it binds with a Kd of less than or equal to 10"4 M, less than or equal to about 10"5 M, less than or equal to about 10"6 M, less than or equal to 10"' M, or less than or equal to 10"8 M, or less than or equal to 5. 10"9 M, or less than or equal to 10"9 M, or less than or equal to 5.10"10 M, or less than or equal to 10"10 M. Affinities of antibodies can be readily determined using conventional techniques, for example, those described by Scatchard G et al. (The attractions of proteins for small molecules and ions. Ann NY Acad Sci 1949:51 :660-672). Binding properties of an antibody to antigens, cells or tissues thereof may generally be determined and assessed using immunodetection methods including, for example, imniunofluorescence-based assays, such as immuno-histochemistry (IHC) and/or fluorescence-activated cell sorting (FACS). "Isolated nucleic acid" - As used herein, is a nucleic acid that is substantially separated from other genome DNA sequences as well as proteins or complexes such as ribosomes and polymerases, which naturally accompany a native sequence. The term embraces a nucleic acid sequence that has been removed from its naturally occurring environment, and includes recombinant or cloned DNA isolates and chemically synthesized analogues or analogues biologically synthesized by heterologous systems. A substantially pure nucleic acid includes isolated forms of the nucleic acid. Of course. this refers to the nucleic acid as originally isolated and does not exclude genes or sequences later added to the isolated nucleic acid by the hand of man. The term "polypeptide" is used in its conventional meaning, i.e., as a sequence of amino acids. The polypeptides are not limited to a specific length of the product. Peptides, oligopeptides, and proteins are included within the definition of polypeptide, and such terms may be used interchangeably herein unless specifically indicated otherwise. This term also does not refer to or exclude post-expression modifications of the polypeptide, for example, glycosylation, acetylation, phosphorylation and the like, as well as other modifications known in the art, both naturally occurring and non-naturally occurring. A polypeptide may be an entire protein, or a subsequence thereof. Particular polypeptides of interest in the context of this invention are amino acid subsequences comprising CDRs and being capable of binding an antigen. An "isolated polypeptide" is one that has been identified and separated and/or recovered from a component of its natural environment. In preferred embodiments, the isolated polypeptide will be purified (1) to greater than 95% by weight of polypeptide as determined by the Lowry method, and most preferably more than 99% by weight, (2) to a degree sufficient to obtain at least 15 residues of N-terminal or internal amino acid sequence by use of a spinning cup sequenator, or (3) to homogeneity by SDS-PAGE under reducing or non-reducing conditions using Coomassie blue or, preferably, silver staining. Isolated polypeptide includes the polypeptide in situ within recombinant cells since at least one component of the polypeptide's natural environment will not be present. Ordinarily, however, isolated polypeptide will be prepared by at least one purification step.
"Identity" or "identical" - As used herein, the term "identity" or "identical", when used in a relationship between the sequences of two or more polypeptides, refers to the degree of sequence relatedness between polypeptides, as determined by the number of matches between strings of two or more amino acid residues. "Identity" measures the percent of identical matches between the smaller of two or more sequences with gap alignments (if any) addressed by a particular mathematical model or computer program (i.e., "algorithms"). Identity of related polypeptides can be readily calculated by known methods. Such methods include, but are not limited to, those described in Computational Molecular Biology, Lesk, A. M., ed., Oxford University Press, New York, 1988; Biocomputing: Informatics and Genome Projects, Smith, D. W , ed., Academic Press, New York, 1993; Computer Analysis of Sequence Data, Part 1, Griffin, A. M., and Griffin, H. G., eds., Humana Press, New Jersey, 1994; Sequence Analysis in Molecular Biology, von Heinje, G., Academic Press, 1987; Sequence Analysis Primer, Gribskov, M. and Devereux, J., eds., M. Stockton Press, New York, 1991; and Carillo et a!., SIAM J. Applied Math. 48, 1073 (1988). Preferred methods for determining identity are designed to give the largest match between the sequences tested. Methods of determining identity are described in publicly available computer programs. Preferred computer program methods for determining identity between two sequences include the GCG program package, including GAP (Devereux et al., Nucl. Acid. Res. \2, 387 (1984); Genetics Computer Group, University of Wisconsin, Madison, Wis.), BLASTP, BLASTN, and FASTA ( Altschul et al., J. Mol. Biol. 215, 403-410 (1990)). The BLASTX program is publicly available from the National Center for Biotechnology Information (NCBI) and other sources (BLAST Manual, Altschul et al. NCB/NLM/NIH Bethesda, Md. 20894; Altschul et al, supra). The well-known Smith Waterman algorithm may also be used to determine identity.
"Modified antibody" - As used herein, the term "'modified antibody" includes synthetic forms of antibodies which are altered such that they are not naturally occurring, e.g., antibodies that comprise at least two heavy chain regions but not two complete heavy chains (such as, domain deleted antibodies or minibodies); multispecific forms of antibodies (e.g., bispecific, trispecific, etc.) altered to bind to two or more different antigens or to different epitopes on a single antigen); heavy chain molecules joined to scFv molecules and the like. ScFv molecules are known in the art and are described, e.g., in US patent 5,892,019. In addition, the term "modified antibody" includes multivalent forms of antibodies (e.g., trivalent, tetravalent, etc., antibodies that bind to three or more copies of the same antigen). In another embodiment, a modified antibody of the invention is a fusion protein comprising at least one heavy chain region lacking a CH2 domain and comprising a binding domain of a polypeptide comprising the binding region of one member of a receptor ligand pair. "Mammal" - As used herein, the term "mammal" refers to any mammal, including humans, domestic and farm animals, and zoo, sports, or pet animals, such as dogs, cats, cattle, horses, sheep, pigs, goats, rabbits, etc. Preferably, the mammal is human.
"Monoclonal antibody" - As used herein, the term "monoclonal antibody" refers to an antibody obtained from a population of substantially homogeneous antibodies, i.e. , the individual antibodies comprised in the population are identical except for possible naturally occurring mutations that may be present in minor amounts. Monoclonal antibodies are highly specific, being directed against a single antigenic site. Furthermore, in contrast to polyclonal antibody preparations that include different antibodies directed against different determinants (epitopes), each monoclonal antibody is directed against a single determinant on the antigen. In addition to their specificity, the monoclonal antibodies are advantageous in that they may be synthesized uncontaminated by other antibodies. The modifier "monoclonal" is not to be construed as requiring production of the antibody by any particular method. For example, the monoclonal antibodies useful in the present invention may be prepared by the hybridoma methodology first described by K oh let" et al., Nature, 256:495 (1975), or may be made using recombinant DNA methods in bacterial, eukaryotic animal or plant cells (see, e.g. , U. S. Pat. No 4,8 16,567). The "monoclonal antibodies" may also be isolated from phage antibody libraries using the techniques described in Clackson et al., Nature, 352:624-628 (1991) and Marks et al., J. Mol. Biol., 222: 58 1 -597 (1991), for example.
"Native sequence" - As used herein, the term "native sequence" refers to a polynucleotide is one that has the same nucleotide sequence as a polynucleotide derived from nature. A "native sequence" polypeptide is one that has the same amino acid sequence as a polypeptide (e.g. , antibody) derived from nature (e.g., from any species). Such native sequence polynucleotides and polypeptides can be isolated from nature or can be produced by recombinant or synthetic means. A polynucleotide "variant", as the term is used herein, is a polynucleotide that typically differs from a polynucleotide specifically disclosed herein in one or more substitutions, deletions, additions and/or insertions. Such variants may be naturally occurring or may be synthetically generated, for example, by modifying one or more of the polynucleotide sequences of the invention and evaluating one or more biological activities of the encoded polypeptide a s described herein and/or using any of a number of techniques well known in the art. A polypeptide "variant", as the term is used herein, is a polypeptide that typically differs from a polypeptide specifically disclosed herein in one or more substitutions, deletions, additions and/or insertions. Such variants may be naturally occurring or may be synthetically generated, for example, by modifying one or more of the above polypeptide sequences of the invention and evaluating one or more biological activities of the polypeptide as described herein and/or using any of a number of techniques well known in the art. Modifications may be made in the structure of the polynucleotides and polypeptides of the present invention and still obtain a functional molecule that encodes a variant or derivativ e polypeptide with desirable characteristics. When it is desired to alter the amino acid sequence of a polypeptide to create an equivalent, or even an improved, v ariant or region of a polypeptide of the invention, one skilled in the art will typically change one or more of the codons of the encoding DNA sequence. For example, certain amino acids may be substituted for other amino acids in a protein structure without appreciable loss of its ability to bind other polypeptides (e.g., antigens) or cells. Since it is the binding capacity and nature of a protein that defines that protein' s biological functional activity, certain amino acid sequence substitutions can be made in a protein sequence, and of course, its underlying DNA coding sequence, and nevertheless obtain a protein with similar properties, it is thus contemplated that various changes may be made in the peptide sequences of the disclosed compositions, or corresponding DNA sequences that encode said peptides without appreciable loss of their biological utility or activity. In many instances, a polypeptide variant will contain one or more conservative substitutions. A "conservative substitution" is one in which an amino acid is substituted for another amino acid that has similar properties, such that one skilled in the art of peptide chemistry would expect the secondary structure and hydropathic nat ure of the polypeptide to be substantially unchanged. As outlined above, amino acid substitutions are generally therefore based on the relative similarity of the amino acid side-chain substituents, for example, their hydrophobicity, hydrophilicity, charge, size, and the like. Exemplary substitutions that take several of the foregoing characteristics into consideration are well known to those of skill in the art and include: arginine and lysine; glutamate and aspartate; serine and threonine; glutamine and asparagine; and valine, leucine and isoleucine. Amino acid substitutions may further be made on the basis of similarity in polarity, charge, solubility, hydrophobicity, hydrophilicity and/or the amphipathic nature of the residues. For example, negatively charged amino acids include aspartic acid and glutamic acid; positively charged amino acids include lysine and arginine; and amino acids with uncharged polar head groups having similar hydrophilicity values include leucine, isoleucine and valine; glycine and alanine; asparagine and glutamine; and serine, threonine, phenylalanine and tyrosine. Other groups of amino acids that may represent conservative changes include: (1) ala, pro, gly, glu, asp, gin, asn, ser, thr; (2) cys, ser, tyr, thr; (3) val, ile, leu, met, ala, phe; (4) lys, arg, his; and (5) phe, tyr, trp, his. A variant may also, or alternatively, contain nonconservative changes. In a preferred embodiment, variant polypeptides differ from a native sequence by substitution, deletion or addition of five amino acids or fewer. Variants may also (or alternatively) be modified by, for example, the deletion or addition of amino acids that have minimal influence on the immunogenicity, secondary structure and hydropathic nature of the polypeptide.
"Pharmaceutically acceptable excipient" - As used herein, the term "pharmaceutically acceptable excipient" includes any and all solvents, dispersion media, coatings, antibacterial and antifungal agents, isotonic and absorption delaying agents and the like. Said excipient does not produce an adverse, allergic or other untoward reaction when administered to an animal, preferably a human. For human administration, preparations should meet sterility, pyrogenicity, and general safety and purity standards as required by FDA Office of Biologies standards.
"Specificity" - As used herein, the term "specificity" refers to the ability to specifically bind (e.g., immunoreact with) a given target, e.g., GARP. A polypeptide may be monospecific and contain one or more binding sites which specifically bind a target, or a polypeptide may be multi specific and contain two or more binding sites which specifically bind the same or different targets. In an embodiment, an antibody of the invention is specific for more than one target. For example, in an embodiment, a multispecific binding molecule of the invention binds to GARP and a second molecule expressed on a tumor cell. Exemplary antibodies which comprise antigen binding sites that bind to antigens expressed on tumor cells are known in the art and one or more CDRs from such antibodies can be included in an antibody of the in vention.
"Synthetic" - As used herein the term "synthetic" with respect to polypeptides includes polypeptides which comprise an amino acid sequence that is not naturally occurring. For example, non-naturally occurring polypeptides are modified forms of naturally occurring polypeptides (e.g., comprising a mutation such as an addition, substitution or deletion) or polypeptides which comprise a first amino acid sequence (which may or may not be naturally occurring) that is linked in a linear sequence of amino acids to a second amino acid sequence (which may or may not be naturally occurring) to which it is not naturally linked in nature.
"Single-chain Fv" also abbreviated as "sFv" or "scFv" - As used herein, the terms "Single-chain Fv", "sFv" or "scFv" are antibody fragments that comprise the VFI and VL antibody domains connected into a single polypeptide chain. Preferably, the sFv polypeptide further comprises a polypeptide linker between the VFI and VL domains that enables the sFv to form the desired structure for antigen binding. For a review of sFv, see Pluckthun in The Pharmacology of Monoclonal Antibodies, vol. 113, Rosenburg and Moore eds., Springer- Ver lag, New York, pp. 269-315 (1994); Borrebaeck 1995, infra.
"Variable region" or "variable domain" - As used herein, the term "variable" refers to the fact that certain regions of the variable domains VH and VL differ extensively in sequence among antibodies and are used in the binding and specificity of each particular antibody for its target antigen. However, the variability is not evenly distributed throughout the variable domains of antibodies. It is concentrated in three segments called "hypervariable loops" in each of the VL domain and the VFI domain which form part of the antigen binding site. The first, second and third hypervariable loops of the V Lambda light chain domain are referred to herein as LI (λ), L2 (λ) and L3 (λ) and may be defined as comprising residues 24-33 (L1( ), consisting of 9, 10 or 11 amino acid residues), 49-53 L2 (λ), consisting of 3 residues) and 90-96 (L3 k), consisting of 6 residues) in the VL domain (Morea et al., Methods 20:267-279 (2000)). The first, second and third hypervariable loops of the VKappa light chain domain are referred to herein as L1(K), L2(K) and L3(K) and may be defined as comprising residues 25-33 (L1(K), consisting of 6, 7, 8, 1 1, 12 or 13 residues), 49-53 (L2(K), consisting of 3 residues) and 90-97 (L3(K), consisting of 6 residues) in the VL domain (Morea et al. , Methods 20:267-279 (2000)). The first, second and third hypervariable loops of the VH domain are referred to herein as HI, H2 and H3 and may be defined as comprising residues 25-33 (HI, consisting of 7, 8 or 9 residues), 52-56 (H2, consisting of 3 or 4 residues) and 91-105 (H3, highly variable in length) in the VH domain (Morea et al, Methods 20:267-279 (2000)). Unless otherwise indicated, the terms L I , L2 and L3 respectively refer to the first, second and third hypervariable loops of a VL domain, and encompass hypervariable loops obtained from both Vkappa and V lambda isotypes. The terms HI, H2 and H3 respectively refer to the first, second and third hypervariable loops of the VH domain, and encompass hypervariable loops obtained from any of the known heavy chain isotypes, including [gamma], [epsilon], [delta], a or [mu]. The hypervariable loops L , L2, L3, HI, H2 and H3 may each comprise part of a "complementarity determining region" or "CDR", as defined below.
"Valency" -As used herein the term "valency" refers to the number of potential target binding sites in a polypeptide. Each target binding site specifically binds one target molecule or specific site on a target molecule. When a polypeptide comprises more than one target binding site, each target binding site may specifically bind the same or different molecules (e.g., may bind to different ligands or different antigens, or different epitopes on the same antigen). The subject binding molecules preferably have at least one binding site specific for a human GARP molecule. In particular embodiments the GARP antibodies provided herein may be at least bivalent.
"Treating" or "treatment" or "alleviation" - As used herein, the terms "treating" or "treatment" or "alleviation" refers to both therapeutic treatment and prophylactic or preventative measures; wherein the object is to prevent or slow down (lessen) the targeted pathologic condition or disorder. Those in need of treatment include those already with the disorder as well as those prone to have the disorder or those in whom the disorder is to be prevented. A subject or mammal is successfully "treated" for an infection if, after receiving a therapeutic amount of an antibody according to the methods of the present invention, the patient shows observable and/or measurable reduction in or absence of one or more of the following: reduction in the number of pathogenic cells; reduction in the percent of total cells that are pathogenic; and/or relief to some extent, of one or more of the symptoms associated with the specific disease or condition, reduced morbidity and mortality, and improvement in quality of life issues. The above parameters for assessing successful treatment and improvement in the disease are readily measurable by routine procedures familiar to a physician.
"TG F-β" - As used herein, the term TGF-β refers to the three isoforms named TGF-β , TGF-P2 and ΤΟΡ-β3. The peptide structures of the TGF-β isoforms are highly similar (homologies on the order of 70-80 %). They are all encoded as large protein precursors, TGF-β 1 (Gen Bank Access No: NM_000660 contains 390 amino acids and ΊΌΙ:-β2 (GenBank Access No: NM 001 135599 and NM 003238) and TGF^33 (GenBank Access No: XM_005268028) each contain 4 12 amino acids. They each have an N-terminal signal peptide of 20-30 amino acids that they require for secretion from a cell, a pro-region (named latency associated peptide or LAP), and a 1 1 2- 1 14 amino acid C-terminal region that becomes the mature TGF-β molecule following its release from the pro-region by proteolytic cleavage. After proteolytic cleavage, LAP and mature TGF-β remain non-covalently associated and form the "latent" TGF-β molecule. In this latent form, mature TGF-β is prev ented from binding to the TGF-β receptor by LAP. To exert a signal, mature TGF-β must be released from LAP. Mature TGF- β that is not associated to LAP is called active TGF-β, as it can bind to the TGF-β receptor and transduce a signal.
TGF-β 1 has the following amino acid sequence:
MPPSGLRLJjPLLJjPLI.^iLLVL PGRPAAGLS CK IDMEIA7KRKRIEAIRGQILSKLRL ASPPSQGEVPPGPLPEAVLALYNSTRDRVAGESAEPEPEPEADYYAKEVTRVLMVETHN EIYDKFKQSTHS IYMFFN SELREAVPEPVLLSRAELRLLRLKLKVEQHVELYQKYSNN SWRYLSNRLLAPSDSPEWLSFDVTGWRQWLSRGGEIEGFRLSAHCSCDSRDNTLQVDI NGFTTGRRGDLATIHGMNRPFLLL ATPLERAQHLQSSRHRRALDTNYCFSSTEKNCCV RQLYIDFRKDLGWKWIHEPKGYHANFCLGPCPYIWSLDTQYSKVLALYNQHNPGASAAP CCVPQALEPLPIVYYVGRKPKVEQLSNl-lIVRSCKCS (SEQ ID NO: 53 ) .
LAP has the following amino acid sequence:
LSTCKTIDMELVKRKRIEAIRGQILSKLRLASPPSQGEVPPGPLPEAVLALYNSTRDRV AGESAEPEPEPEADYYAKEVTRVLMVETHNEIYDKFKQSTHS IYMFFNTSELREAVPEP VLLSRAELRLLRLKLKVEQHVELYQKYSNNSWRYLSNRLLAPSDSPEWLSFDVTGWRQ LSRGGEIEGFRLSAHCSCDSRDNTLQVDINGFTTGRRGDLATIHGMNRPFLLLMATPL ERAQHLQSSRHRR (SEQ ID NO: 54) .
Mature TGF-β Ι has the following amino acid sequence:
ALDTNYCFSSTEKNCCVRQLYIDFRKDLGWK IHEPKGYHANFCLGPCPYI SLDTQYS KVLALYNQHNPGASAAPCCVPQALEPLPIVYYVGRKPKVEQLSNMIVRSCKCS (SEQ ID NO: 55) . One object of the invention is a protein binding to GARP in the presence of TGF-13.
Another object of the invention is a protein comprising an antigen binding domain, wherein the antigen binding domain binds specifically to GARP in the presence of
TGF-β.
In an embodiment, said protein binds to GARP only in the presence of TGF-β. GARP is also called Leucin Rich Repeat Containing 32 ( LRRC32) and belongs to the Leucin Rich Repeat family. The complete amino acid sequence of the human GARP protein transcript variant 2 of the present invention (SEQ I D NO: 1) (GenBank Accession NJV1 001 128922) is:
MRPQILLLLALLTLGLAAQHQDKVPCKMVDKKVSCQVLGLLQVPSVLPPDTETLDLSGN QLRS ILASPLGFYTALRHLDLSTNEISFLQPGAFQALTHLEHLSLAHNRLA1VIATALSAG GLGPLPRVTSLDLSGNSLYSGLLERLLGEAPSLHTLSLAENSLTRLTRHTFRDMPALEQ LDLHSNVLMDIEDGAFEGLPRLTHLNLSRNSLTCISDFSLQQLRVLDLSCNS IEAFQTA SQPQAEFQLTWLDLRENKLLHFPDLAALPRLIYLNLSNNLIRLPTGPPQDSKGIHAPSE GWSALPLSAPSGNASGRPLSQLLNLDLSYNEIELIPDSFLEHLTSLCFLNLSRNCLRTF EARRLGSLPCLMLLDLSHNALETLELGARALGSLRTLLLQGNALRDLPPYTFANLASLQ RLNLQGNRVSPCGGPDEPGPSGCVAFSGITSLRSLSLVDNEIELLRAGAFLHTPLTELD LSSNPGLEVATGALGGLEASLEVLALQGNGLMVLQVDLPCFICLKRLNLAENRLSHLPA WTQAVSLEVLDLRNNSFSLLPGSAMGGLETSLRRLYLQGNPLSCCGNGWLAAQLHQGRV DVDATQDLICRFSSQEEVSLSHVRPEDCEKGGLKNINL111LTFILVSAILLTTLAACC CVRRQKFNQQYKA.
In an embodiment, the protein of the invention binds to GARP when GARP is complexed to T GF-13.
In another embodiment, the protein of the invention binds to GARP when GARP is complexed to latent TGF-13. In another embodiment, the protein of the invention binds to a complex of G ARP and TGF-13. In an embodiment, the protein of the invention binds to a complex of GARP and TGF- B l ; TGF-B2, isoform 1 ; TGF-B2, isoform 2; TGF-B3. Preferably, the protein of the invention binds to a complex of GARP and TGF-B 1 .
In another embodiment, the protein of the invention binds to a complex of G ARP and latent TGF-B.
The term "latent TGF-B" as used herein comprises a complex whose C-terminal fragment, or mature TGF-B 1 , remains non-covalently bound to the N-terminal fragment known as LAP.
In another embodiment, the protein of the invention binds to a complex of G ARP and latent TGF-B at a KD (the equilibrium dissociation constant between the antibody and its antigen) of less than 10"! 0 M.
In an embodiment, said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi- specific antibody, a diabody, a triabody, a tetrabody.
In another embodiment, said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
In another embodiment, said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
A domain antibody is well known in the art and refers to the smallest functional binding units of antibodies, corresponding to the variable regions of either the heavy or light chains of antibodies.
A nanobody is ell known in the art and refers to an antibody-derived therapeutic protein that contains the unique structural and functional properties of naturally- occurring heavy chain antibodies. These heavy chain antibodies contain a single variable domain (VHH) and two constant domains (CH2 and CH3). A unibody is well known in the art and refers to an antibody fragment lacking the hinge region of IgG4 antibodies. The deletion of the hinge region results in a molecule that is essentially half the size of traditional IgG4 antibodies and has a univalent binding region rather than the bivalent biding region of IgG4 antibodies. An affibody is well known in the art and refers to affinity proteins based on a 58 amino acid residue protein domain, derived from one of the IgG binding domain of staphylococcal protein A.
DARPins (Designed Ankyrin Repeat Proteins) are well known in the art and refer to an antibody mimetic DRP (designed repeat protein) technology developed to exploit the binding abilities of non-antibody polypeptides.
Anticalins are well known in the art and refer to another antibody mimetic technology, wherein the binding specificity is derived from lipocalins. Anticalins may also be formatted as dual targeting protein, called Duocalins.
Avimers are ell known in the art and refer to another antibody mimetic technology. Versabodies are well known in the art and refer to another antibody mimetic technology. They are small proteins of 3-5 kDa with >15% cysteines, which form a high disulfide density scaffold, replacing the hydrophobic core the typical proteins have.
In another embodiment, said protein is an immunoconjugate comprising an antibody or fragment thereof conjugated to a therapeutic agent. In another embodiment, said protein is a conjugate comprising the protein of the invention conjugated to an imaging agent. Said protein could be used for example for imaging applications.
Another object of the invention is a protein that binds to G ARP and inhibits TGF-β signaling. In an embodiment, said protein binds to GARP when GARP is complexed to TGF-β.
In another embodiment, said protein binds to GARP when GARP is complexed to latent TGF-β.
In another embodiment, said protein binds to a complex of GARP and TGF-13. In another embodiment, said protein binds to a complex of GARP and latent TGF-B.
In an embodiment, said protein is an antibody molecule selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi- specific antibody, a diabody, a triabody, a tetrabody.
In another embodiment, said protein is an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody.
In another embodiment, said protein is an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
In an embodiment, said protein is an anti-hGARP (anti human GARP) antibody or antigen binding fragment thereof that inhibits TGF-B signaling.
In an embodiment, said protein prevents or inhibits active TGF-B to be released or inhibits the release of mature TGF-B from GARP/ TGF-B. In an embodiment, said protein prevents or inhibits the release of active TGF-B from membrane-bound GARP/TGF-B.
In an embodiment, said protein prevents or inhibits active TGF-B to be released or inhibits the release of mature TGF-B from Tregs.
In another embodiment, said protein inhibits or prevents mature TGF-B to bind to TGF- B receptors.
In another embodiment, said protein inhibits TGF-B activity and/or the activation of molecules from the TGF-B receptor signaling pathway.
As used herein, the term "inhibit" means that the protein is capable of blocking, reducing, preventing or neutralizing TGF-B signaling or the release of mature TGF-B from Tregs or the binding of mature TGF-B to TGF-B receptors or TGF-B activity and/or the activation of molecules from the TGF-B receptor signaling pathway.
In an embodiment, said protein is a monoclonal antibody. In another embodiment, said protein is a polyclonal antibody. In an embodiment, said protein binds to a conformational epitope.
In an embodiment, said conformational epitope comprises one or more amino acids of hGARP. In another embodiment, said conformational epitope comprises an epitope of GARP modified as a result of GARP being complexed with latent TGF-β. In another embodiment, said conformational epitope comprises amino acids of hGARP and amino acids of latent TGF-B.
In another embodiment, said conformational epitope is a mixed conformational epitope and comprises amino acids from both GARP and TGF-B.
In another embodiment, said conformational epitope is a binding-induced conformational epitope and comprises amino acids from GARP only, but that adopts a different conformation in the presence of TGF-B.
In an embodiment, said epitope comprises one or more residues from 101 to 141 residues of hG ARP amino acid sequence (SEQ ID NO: 1 ).
These 101 to 14 1 residues are as set forth in SEQ ID NO: 12: HL SL AHNRL AM AT AL S AGGLGPLPRVT SLDL S GNSL YS GLL .
In another embodiment of the invention, said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence ( SEQ ID NO: 1). In another embodiment of the invention, said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence ( SEQ ID NO: 1) and requires the presence of TGF-B.
In another embodiment of the invention, said epitope comprises the residues 137, 138 and 139: YSG of hGARP amino acid sequence (SEQ ID NO: 1) and 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, I I, 12, 13, 14, 15, 16, 17, 18, 19, 20 contiguous residues in N-terminal and/or C- terminal of the residues 137, 138 and 139: YSG of SEQ ID NO: 1 . In another embodiment of the invention, said epitope comprises the residues 137, 138 and 139: YSG of hG ARP amino acid sequence (SEQ ID NO: 1) and 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, 20 contiguous residues in N-terminal and/or C- terminal of the residues 137, 138 and 139: YSG of SEQ ID NO: 1, and requires the presence of TGF-β.
In an embodiment of the invention, the protein of the invention binds to epitopes preferably within the region 10 1 - 14 1 of hGARP and inhibits the release of latent TGF-13 from GARP.
One skilled in the art can determine the ability of a protein to inhibit TGF-13 signaling by measuring for example activation of molecules from the TGF-β receptor signaling pathway. One example of such test is the measurement of the phosphorylation of SMAD2 (as shown in Example 2 of the present invention).
Another object of the invention is a protein binding to an epitope of a complex formed by human GARP and TGF-13, said epitope comprising at least one of the residues 137, 138, or 139 of GARP (SEQ I D NO: 1) and at least one residue of TGF-13 (SEQ ID NO: 53).
In one embodiment, said protein is an antibody or an antigen binding fragment thereof.
In another embodiment, said antibody or antigen binding fragment thereof is selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi-specific antibody, a diabody, a triabody, a tetrabody; or an antibody fragment selected from the group consisting of a unibody, a domain antibody, and a nanobody; or an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an atrimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
In one embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ I D NO: 1). In another embodiment, the epitope comprises at least one of the residues 137, 138, or 139 of G ARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide ( LAP ) of TGF-B (SEQ ID NO: 54) and at least one residue from mature TGF-B
In another embodiment, the epitope comprises at least one of the residues 137, 138, or 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 1 8, 19, or 20 residue(s) from the Latency associated peptide (LAP) ( SEQ ID NO: 54) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B ( SEQ ID NO: 55). In another embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55). In another embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least I, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, 273 of TGF-B (SEQ ID NO: 53) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55).
In another embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least I, 2, 3, 4, 5, 6, 7, 8, 9, 10, I I, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, or 6 residue* s) from mature TGF-B (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF B (SEQ ID NO: 53).
In another embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF-β (SEQ ID NO: 53) and at least 1, 2, 3, 4, 5, or 6 residue(s) from mature TGF-B (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 34 1 , and 345 of TGF 13 (SEQ ID NO: 53 ).
In another embodiment, the epitope comprises one, two or three of the residues 137, 138, and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 1 3, or 14 residue(s) selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, 273, 284, 336, 337, 338, 341, and 345 of TGF-B (SEQ ID NO: 53).
In another embodiment, the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 1 89 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 1 8, 19, or 20 residue(s) from mature TGF-B ( SEQ ID NO: 55).
In another embodiment, the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1 ) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP ( SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (LAP) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF-B and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from mature TGF-B (SEQ ID NO: 55).
In another embodiment, the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, or 19 residue(s) selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 1 89 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1, 12, 13, 14, 15, 16, 17, 18, 19, or 20 residue(s) from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least 1, 2, 3, 4, 5, or 6 residue(s) from mature TGF-β (SEQ ID NO: 55) selected from the group of residues 284, 336, 337, 338, 341 , and 345 of TGF 13 (SEQ ID NO: 53).
In another embodiment, the epitope comprises at least one, two or three of the residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 1 1 , 1 2, 13, 14, 15, 1 6, 1 7, 1 8, or 19 residue(s) selected from the group of residues I 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP (SEQ ID NO: 1 ) and at least 1, 2, 3, 4, 5, 6, 7, or 8 residue(s) from the Latency associated peptide (L AP) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF-β and at least 1 , 2, 3, 4, 5, and 6 residue(s) from mature TGF-β ( SEQ ID NO: 55 ) selected from the group of residues 284, 336, 337, 338, 34 1 , and 345 of TGF β (SEQ ID NO: 53).
An object of the invention is an antibody against human GARP or antigen binding fragment thereof wherein the variable region of the heavy chain comprises at least one of the fallowings CDRs:
VH-CDR1 : GFSLTGYGIN (SEQ ID NO: 2) or GYGIN (SEQ ID NO: 52);
VH-CDR2: MIWSDGSTDYNSVLTS (SEQ ID NO: 3); and
VH-CDR3: DRNYYDYDGAMDY (SEQ ID NO: 4).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the follow ings CDRs:
VL-CDRl : KASDHIKNWLA (SEQ I D NO: 5);
VL-CDR2: GATSLEA ( SEQ ID NO: 6); and
VL-CDR3: QQYWSTPWT (SEQ ID NO: 7). Another object of the inv ention is an antibody against human G ARP or antigen binding fragment thereof wherein the variable region of the heavy chain comprises at least one of the followings CDRs:
VH-CDR1 : SYYID ( SEQ ID NO: 13);
VH-CDR2: RTOPEDGGTKYAQKFQG (SEQ ID NO: 14); and VH-CDR3: NEWETVWGDLMYEYEY (SEQ ID NO: 15).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the fallowings CDRs:
VL-CDR1: QASQXil X2S X3LA (SEQ ID NO: 16), wherein Xi is S or T, X2 is S or V, X3 is Y or F;
VL-CDR2: 1 1 SX 5X X5T (SEQ ID NO: 17), wherein X, is G or R; X2 is A or
T; X3 is R or I; X4 is L or P; X5 is Q or K; and
VL-CDR3: QQYX] SX2PX3T, wherein Xj is D, A, Y or V; X2 is A, L or V; X3 is V or P (SEQ ID NO: 18).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the heavy chain comprises the VH-CDR l of SEQ ID NO: 13, VH-CDR2 of SEQ ID NO: 14 and VH-CDR3 of SEQ ID NO: 15 and the variable region of the light chain comprises at least one of VL-CDR l. as set forth in SEQ ID NO: 19; SEQ ID NO: 22; SEQ ID NO: 25; SEQ ID NO: 28; or SEQ ID NO: 31; at least one of VL-CDR2 as set forth in SEQ ID NO: 20; SEQ ID NO: 23; SEQ ID NO: 26; SEQ ID NO: 29; or SEQ ID NO: 32 and at least one of VL-CDR3 as set forth in SEQ ID NO: 21 ; SEQ ID NO: 24; SEQ ID NO: 27; SEQ ID NO: 30; or SEQ ID NO: 33.
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
VL-CDRl QASQSISSYLA (SEQ ID NO: 19);
VL-CDR2: GASRLQT (SEQ ID NO: 20); and
VL-CDR3: QQYDSLPVT (SEQ ID NO: 2 1 ).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
VL-CDRl : QASQSIVSYLA (SEQ ID NO: 22); VL-CDR2: GASRLQT (SEQ ID NO: 23); and
VL-CDR3: QQYASAPVT (SEQ ID NO: 24).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
VL-CDRl: QASQSISSYLA (SEQ ID NO: 25);
VL-CDR2: GTSRLKT (SEQ ID NO: 26); and
VL-CDR3: QQYYSAPVT (SEQ ID NO: 27).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
VL-CDRl: QASQTISSFLA (SEQ ID NO: 28);
VL-CDR2: RASIPQT (SEQ ID NO: 29); and
VL-CDR3: QQYVSAPPT (SEQ ID NO: 30).
Another object of the invention is an anti-hGARP antibody or antigen binding fragment thereof wherein the variable region of the light chain comprises at least one of the followings CDRs:
VL-CDRl: QASQSISSYLA (SEQ ID NO: 31);
VL-CDR2: GASRLKT (SEQ ID NO: 32); and
VL-CDR3: QQYASVPVT (SEQ ID NO: 33).
In an embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof may comprise the CHI domain, hinge region, CH2 domain and CH3 domain of a human antibody, in particular IgGl, IgG2, IgG3 or IgG4.
In an embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR 1 GFSLTGYGIN (SEQ ID NO: 2), VH-CDR2 MIWSDGSTDYNSVLTS (SEQ ID NO: 3) and VH-CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4). In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR 1 GYGIN (SEQ ID NO: 52), VH-CDR2 MIWSDGS'l DYNSVLTS (SEQ ID NO: 3) and VH- CDR3 DRNYYDYDGAMDY (SEQ ID NO: 4). In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 KASDHIKNWLA (SEQ ID NO: 5), VL-CDR2 GATSLEA (SEQ ID NO: 6) and VL-CDR3 QQYWSTPWT (SEQ ID NO: 7).
In an embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its heavy chain the following CDRs: VH-CDR1 SYYID (SEQ ID NO: 13), VH-CDR2 RIDPEDGGTKYAQKFQG (SEQ I D NO: 14) and VH-CDR3 NEWETVVVGDLMYEYEY ( SEQ ID NO: 15).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR I QASQXil X2SX3LA (SEQ ID NO: 16), wherein Xi is S or T, X2 is S or V, X3 is Y or F; VL-CDR2 XiX2SX3X4X5T ( SEQ ID NO: 17), wherein X] is G or R; X2 is A or T; X3 is R or I; X4 is L or P; X5 is Q or K; and VL-CDR3 QQYX1SX2PX3T, wherein Xi is D, A, Y or V; X2 is A, L or V; X3 is V or P (SEQ ID NO: 18).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the follow ing CDRs: VL-CDR 1 QASQSISSYLA ( SEQ ID NO: 19), VL-CDR2 GASRLQT ( SEQ ID NO: 20), and VL-CDR3 QQYDSLPVT ( SEQ ID NO: 2 1 ).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 QASQSIVSYLA (SEQ I D NO: 22); VL-CDR2 GASRLQT (SEQ ID NO: 23); and VL-CDR3 : QQYASAPVT (SEQ ID NO: 24).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR 1 QASQSISSYLA (SEQ ID NO: 25); VL-CDR2 GTSRLKT (SEQ ID NO: 26); and VL-CDR3 QQYYSAPVT (SEQ ID NO: 27).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR1 QASQTISSFLA (SEQ ID NO: 28); VL-CDR2 RASIPQT (SEQ ID NO: 29); and VL-CDR3 QQYVSAPPT (SEQ ID NO: 30).
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises in its light chain the following CDRs: VL-CDR I QASQSISSYLA (SEQ ID NO: 31); VL-CDR2 GASRLKT (SEQ ID NO: 32); and VL-CDR3 QQY ASVPVT (SEQ ID NO: 33).
According to the invention, any of the CDRs 1, 2 and 3 of the heavy and light chains may be characterized as having an amino acid sequence that shares at least 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with the particular CDR or sets of CDRs listed in the corresponding SEQ ID NO.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having:
(i) the heavy chain CDR 1 , 2 and 3 (VH-CDR 1 , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ ID NO: 2, 3 and 4; and
(ii) the light chain CDR 1 , 2 and 3 (Y'L-CDR l , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 5, 6 and 7 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having: (i) the heavy chain CDR 1 , 2 and 3 (VH-CDR1 , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ I D NO: 52, 3 and 4; and
(ii) the light chain CDR 1, 2 and 3 (Y'L-CDR l , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 5, 6 and 7 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof is selected from the group consisting of an antibody having:
(i) the heavy chain CDR 1, 2 and 3 (VH-CDR 1 , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ I D NO: 13, 14 and 15; and
(ii) the light chain CDR 1 , 2 and 3 (VL-CDR I , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 16, 17 and 18 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises:
(i) the heavy chain CDR 1 , 2 and 3 ( VH-CDR 1 , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ ID NO: 1 3, 14 and 15; and
(ii) the light chain CDR 1, 2 and 3 (VL-CDR I , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 19, 20 and 2 1 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises:
(i) the heavy chain CDR 1, 2 and 3 (VH-CDR I , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ ID NO: 1 3, 14 and 1 ; and
(ii) the light chain CDR 1 , 2 and 3 ( VL-CDR I , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 22, 23 and 24 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises: (i) the heavy chain CDR 1, 2 and 3 (VH-CDR I , VH-CDR2, VH-CDR3) amino acid sequences as shown in SEQ ID NO: 13, 14 and 15; and
(ii) the light chain CDR 1 , 2 and 3 ( VL-CDR 1 , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 25, 26 and 27 respectively; optionally wherein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises:
(i) the heavy chain CDR 1 , 2 and 3 ( VH-CDR I , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ ID NO: 13, 14 and 1 5; and
(ii) the light chain CDR 1 , 2 and 3 (VL-CDR1, VL-CDR2, VL-CDR3) amino acid sequences as shown in SEQ ID NO: 28, 29 and 30 respectively; optionally herein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid. In another embodiment of the invention, the anti-hGARP antibody or antigen binding fragment thereof comprises:
(i) the heavy chain CDR 1, 2 and 3 (VH-CDR I , VH-CDR2, VH-CDR3 ) amino acid sequences as shown in SEQ I D NO: 13, 14 and 15; and
(ii) the light chain CDR 1 , 2 and 3 (VL-CDR I , VL-CDR2, VL-CDR3 ) amino acid sequences as shown in SEQ ID NO: 3 1 , 32 and 33 respectively; optionally herein one, two, three or more of the amino acids in any of said sequences may be substituted by a different amino acid.
In an embodiment, the anti-hGARP antibody or antigen binding fragment thereof comprises a variable heavy chain CDR3 comprising an amino acid sequence of SEQ ID NO: 4 ( DRN Y YD YDG AMD Y ), or sequence variant thereof, wherein the sequence variant comprises one, two or three amino acid substitutions in the recited sequence.
In an embodiment, the anti-hGARP antibody or antigen binding fragment thereof comprises a variable heavy chain CDR3 comprising an amino acid sequence of SEQ I D NO: 15, or sequence variant thereof, wherein the sequence variant comprises one, two or three amino acid substitutions in the recited sequence.
Another object of the invention is the anti-hGARP antibody MHGARP8 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 8 and a light chain variable region of sequence SEQ ID NO: 9.
MAVLALLFCLVTFPSCILSQVQLKESGPGLVAPSQSLSITCTVSGFSLTGYGINW VRQPPGKGLEWLGMIWSDGSTDYNSVLTSRLRISKDNSNSQ LKMNSLQVDD TARYYCARDR YYDYDGAMDYWGQGTSVTVSS (SEQ ID NO: 8).
MKFP SQLLLFLLFRITGIICDIQ VTQ S S SYL S VSLGDRVTITCK ASDHIKNWL AWY QQKPGIAPRLLVSGATSLEAGVPSRFSGSGSGKNFTLSITSLQTEDVATYYCQQY WSTPWTFGGGTTLEIR (SEQ ID NO: 9).
Another object of the invention is the anti-hGARP antibody MHGARP8 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 50 and a light chain variable region of sequence SEQ ID NO: 51, wherein SEQ ID NO: 50 and SEQ ID NO: 51 correspond, respectively, to SEQ ID NO: 8 and SEQ ID NO: 9 wherein the signal peptide sequences were removed.
QVQLKESGPGLVAPSQSLSITCTVSGFSLTGYGINWVRQPPGKGLEWLGMIWSD
GSTDYNSVXTSRLRISKDNSNSQ LKMNSLQVDDTARYYCARDRNYYDYDG AM D Y WGQGTSVT VSS (SEQ ID NO: 50).
DIQ VTQ S S SYL S VSLGDRVTITCK ASDHIKNWL AWYQQKPGIAPRLLVSGAT SL EAGVPSRFSGSGSGKNFTLSITSLQTEDVATYYCQQYWSTPWTFGGGTTLEIR
(SEQ ID NO: 51).
Another object of the invention is the anti-hG ARP antibody LHG I 0 or antigen binding fragment thereof comprising a heavy chain variable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 35.
EVQLVQPGAELRNSGASVKVSCKASGYRFTSYYIDWVRQAPGQGLEWMGRID PEDGGTKYAQKFQGRVTFTADTSTSTAYVELSSLRSEDTAVYYCARNEWETVV
VGDLMYEYEYWGQGTQVTVSS (SEQ ID NO: 34). DIQMTQSPTSLSASLGDRVTITCQASQSISSYLAWYQQKPGQAPKLLIYGASRLQ TG SRPSGSGSGTSFTLTISGLEAEDAGTY^YCQQY'DSLPVTFGQGTKVELK (SEQ ID NO: 35).
Another object of the invention is the anti-hGARP antibody LHG I 0.3 or antigen binding fragment thereof comprising a heavy chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 36.
D1QMTQSPSSLSASLGDRVT1TCQASQSIVSYLAWYQQKPGQAPKLL1YGASRLQ
TG SRFSGSGSGTSFTLTISGLEAEDAGTY^YCQQY'ASAPVTFGQGTGVELK ( SEQ ID NO: 36). Another object of the inv ention is the anti-hGARP antibody LHG I O.4 or antigen binding fragment thereof comprising a heav y chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 37.
DIQ\rrQSPSSLSASLGDRVTITCQASQSISSYLAWYQQKPGQAPKLLIYGTSRLK TGVPSRFSGSGSGTSFTLTISGLEAEDAGTYYCQQYYSAPVTFGQGTKVELK
( SEQ ID NO: 37).
Another object of the inv ention is the anti-hGARP antibody LHG I 0.5 or antigen binding fragment thereof comprising a heav y chain v ariable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 38.
DIQAiTQSPSSLSPSLGDRVTITCQASQTISSFLAWYHQ PGQPPKLLlYRASIPQT GVPSRFSGSGSGTSFTLTIGGLEAEDAGTYYCQQYVSAPPTFGQGT VELK
(SEQ ID NO: 38).
Another object of the invention is the anti-hGARP antibody LHG10.6 thereof comprising a heavy chain variable region of sequence SEQ ID NO: 34 and a light chain variable region of sequence SEQ ID NO: 39. DIQ TQSPSSLSASLGDRVTITCQASQSISSYLAWYQQ
TGVPSRFSGSGSGTSFTLTISGLEAEDAGTYYCQQYASVPVTFGQGTKV
(SEQ ID NO: 39). In an embodiment of the invention, one, two, three or more of the amino acids of the heavy chain or light chain variable regions as described here above may be substituted by a different amino acid.
In another embodiment, an antibody of the invention comprises heavy and light chain variable regions comprising amino acid sequences that are homologous to the amino acid sequences of the MHGARP8 antibody described herein, wherein the antibodies retain the desired functional properties of the protein of the invention.
In an embodiment of the invention, the sequence of the heavy chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 8 or with
SEQ ID NO: 50.
In an embodiment of the invention, the sequence of light chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 9 or with SEQ ID NO: 51.
In another embodiment, an antibody of the invention comprises heavy and light chain variable regions comprising amino acid sequences that are homologous to the amino acid sequences of the LUG 10 antibody described herein, and wherein the antibodies retain the desired functional properties of the protein of the invention.
In an embodiment of the invention, the sequence of the heavy chain variable region of an anti-hG ARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 34.
In an embodiment of the invention, the sequence of light chain variable region of an anti-hGARP antibody of the invention encompasses sequences that have 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with SEQ ID NO: 35; 36; 37; 38 or 3 . In any of the antibodies of the invention, e.g. MHGARP8 or LHGIQ, the specified variable region and CDR sequences may comprise conservative sequence modifications. Conservative sequence modifications refer to amino acid modifications that do not significantly affect or alter the binding characteristics of the antibody containing the amino acid sequence. Such conservative modifications include amino acid substitutions, additions and deletions. Modifications can be introduced into an antibody of the invention by standard techniques known in the art, such as site-directed mutagenesis and PCR-mediated mutagenesis. Conservative amino acid substitutions are typically those in which an amino acid residue is replaced with an amino acid residue having a side chain with similar physicochemical properties. Specified variable region and CDR sequences may comprise one, two, three, four or more amino acid insertions, deletions or substitutions. Where substitutions are made, preferred substitutions ill be conservative modifications. Families of amino acid residues having simi lar side chains have been defined in the art. These fami lies include amino acids with basic side chains (e.g., lysine, arginine, histidine), acidic side chains (e.g. , aspartic acid, glutamic acid), uncharged polar side chains (e.g. glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine, tryptophan), nonpolar side chains (e.g. , alanine, valine, leucine, isoleucine, proline, phenylalanine, methionine), beta-branched side chains (e.g. threonine, valine, isoleucine) and aromatic side chains (e.g. , tyrosine, phenylalanine, tryptophan, histidine). Thus, one or more amino acid residues w ithin the CDR regions of an antibody of the invention can be replaced w ith other amino acid residues from the same side chain family and the altered antibody can be tested for retained function (i.e. , the properties set forth herein) using the assays described herein. anti-hGARP antibodies may also be CDR-grafted antibodies in which the CDRs are derived from a camelid antibody, for example a camelid anti-hGARP antibody raised by active immunization with liGARP.
In an embodiment, the invention provides an antibody that binds essentially the same epitope as the MI IGARP8 or LHG10 antibody.
In some embodiments of this invention, anti-hGARP antibodies comprising VH and VL domains, or CDRs thereof may comprise CHI domains and/or CL domains, the amino acid sequence of which is fully or substantially human. Where the antigen binding polypeptide of the invention is an antibody intended for human therapeutic use, it is typical for the entire constant region of the antibody, or at least a part thereof, to have a fully or substantially human amino acid sequence. Therefore, one or more or any combination of the CHI domain, hinge region, CH2 domain, CHS domain and CL domain (and CH4 domain if present) may be fully or substantially human with respect to its amino acid sequence. Advantageously, the CHI domain, hinge region, CH2 domain, CHS domain and CL domain (and CH4 domain if present) may all have a fully or substantially human amino acid sequence. In the context of the constant region of a humanized or chimeric antibody, or an antibody fragment, the term "substantially human" refers to an amino acid sequence identity of at least 90%, or at least 95%, or at least 97%, or at least 99% with a human constant region. The term ""human amino acid sequence" in this context refers to an amino acid sequence which is encoded by a human immunoglobulin gene, which includes germline, rearranged and somatically mutated genes. The invention also contemplates polypeptides comprising constant domains of '"human" sequence which have been altered, by one or more amino acid additions, deletions or substitutions with respect to the human sequence, excepting those embodiments where the presence of a "fully human" hinge region is expressly required. The presence of a ""fully human" hinge region in the anti-hGARP antibodies of the invention may be beneficial both to minimize immunogenicity and to optimize stability of the antibody. It is considered that one or more amino acid substitutions, insertions or deletions may be made within the constant region of the heavy and/or the light chain, particularly within the Fc region. Amino acid substitutions may result in replacement of the substituted amino acid with a different naturally occurring amino acid, or with a non-natural or modified amino acid. Other structural modifications are also permitted, such as for example changes in glycosylation pattern (e.g. by addition or deletion of N- or O-l inked glycosylation sites). Depending on the intended use o the antibody, it may be desirable to modify the antibody of the invention with respect to its binding properties to Fc receptors, for example to modulate effector function. For example cysteine residue( s) may be introduced in the Fc region, thereby al lowing interchain disulfide bond formation in this region. The homodimeric antibody thus generated may have improved effector function. See Caron et al., J. Exp. Med. 1 76: 1 191 - 1 195 (1992) and S hopes, B. J. Immunol. 148:2918-2922 (1992). Alternatively, a GARP antibody can be engineered which has dual Fc regions and may thereby have enhanced complement lysis and ADCC capabilities. See Stevenson et al., Anti-Cancer Drug Design 3 :219-230 (1989). The invention also contemplates immunoconjugates comprising an antibody as described herein conjugated to a cytotoxic agent such as a chemotherapeutic agent, toxin (e.g. , an enzymatically active toxin of bacterial, fungal, plant or animal origin, or fragments thereof), or a radioactive isotope (i.e., a radioconjugate). Fc regions may also be engineered for half-life extension, as described by Chan and Carter, 2010 Nature Reviews: Immunology, 10:301 -316, incorporated herein by reference. Variant anti- hGARP antibodies in which the Fc region is modified by protein engineering, as described herein, may also exhibit an improvement in efficacy (e.g. in therapeutics/diagnostics), as compared to an equivalent antibody (i.e. equivalent antigen-binding properties) without the Fc modification.
In vet another embodiment, the Fc region is modified to increase the abilitv of the antibody to mediate antibody dependent cellular cytotoxicity ( ADCC ) and/or to increase the affinity of the antibody for an Fey receptor by modifying one or more amino acids. In still another embodiment, the glycosylation of an antibody is modified. For example, an aglycoslated antibody can be made (i.e. , the antibody lacks glycosylation). Glycosylation can be altered to, for example, increase the affinity of the antibody for the GARP target antigen. Such carbohydrate modifications can be accomplished by; for example, altering one or more sites of glycosylation within the antibody sequence. For example, one or more amino acid substitutions can be made that result in elimination of one or more variable region framework glycosylation sites to thereby eliminate glycosylation at that site. Such aglycosylation may increase the affinity of the antibody for antigen. Also envisaged are variant anti-hGARP antibodies having an altered type of glycosylation, such as a hypofucosylated antibody having reduced amounts of fucosyl residues or a non-fucosylated antibody (as described by Natsume et al., 2009 Drug Design Development and Therapy, 3 : 7- 16) or an antibody having increased bisecting GlcNac structures. Such altered glycosylation patterns have been demonstrated to increase the ADCC activity of antibodies, producing typically 10-fold enhancement of ADCC relative to an equivalent antibody comprising a "native" human Fc domain. Such carbohydrate modifications can be accomplished by, for example, expressing the antibody in a host cell with altered glycosylation enzymatic machinery (as described by Yamane-Ohnuki and Satoh, 2009 mAbs l(3):230-236).
In an embodiment of the invention, the anti-hGARP antibody comprises an Fc region having the sequence SEQ ID NO: 47.
PKSCDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVWVSHEDP
E\^FNWY\TDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCK VSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTK QVSLTCLVKGFYPSDI AVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMH EALHNHYTQKSLSLSPGK (SEQ ID NO: 47).
In another embodiment of the invention, the anti-hGARP antibody comprises the heavy chain constant domain region having the sequence SEQ ID NO: 48, wherein X is N or is mutated into Q to inhibit ADCC.
ASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFP AVLQ S SGLYSLS S VVTVP S S SLGTQTYICNVNHKP SNTKVDKKVEPKSCDKTHT
CPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYV DGW\HNAKTKPREEQYXSTYRVVS\/LTVLHQDWLNGKEYKCKVSNKALPAP lEKTISKA GQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQ PENNYKT T Pin'LDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQ KSLSLSPGK (SEQ ID NO: 48).
In an embodiment of the invention, the residue 297 of SEQ ID NO: 48 is aglycosylated.
In another embodiment of the invention, the N residue at the position 297 of SEQ ID NO: 48 is mutated into Q.
In an embodiment of the invention, the anti-hG ARP antibody comprises the light chain constant domain region having the sequence SEQ ID NO: 49. RTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREA VQWKVDNALQSGNSQ E S VTEQD SKD S T Y S L S S TLTL SK AD YEKHK V YACE VTHQGL S S P VTKSFNRGEC
( SEQ ID NO: 49).
In further embodiments of the invention, anti-hGARP antibodies may be lacking effector function, either because the Fc region of the antibody is of an isotype which naturally lacks effector function, or which exhibits significantly less potent effector function than human IgGl, for example human IgG2 or human IgG4, or because the Fc region of the antibody has been engineered to reduce or substantially eliminate effector function, as described in Armour KL, et al., Eur. J. Immunol , 1999, 29:2613-2624. In further embodiments, the Fc region of the anti-hG ARP antibody may be engineered to facilitate the preferential formation of bispecific antibodies, in which two antibody heavy chains comprising different variable domains pair to form the Fc region of the bispecific antibody. Examples of such modifications include the "knobs-into-hole" modifications described by Ridgway JB, Presta LG, Carter P., 1996 Protein Eng. Jul; 9(7) : 61 7-21 and Merchant AM, et al. 1998 Nat Biotechnol. Jul; 1 6(7) : 677-81.
In an embodiment of the invention, the anti-hGARP antibody of the invention may exhibit one or more effector functions selected from antibody-dependent cel l-mediated cytotoxicity (ADCC), complement dependent cytotoxicity (CDC) and antibody- dependent cell-mediated phagocytosis (ADCP) against cells expressing human GARP protein on the cell surface. The antibody may exhibit ADCC against GARP-related dysfunctional cells. The antibody may exhibit enhanced ADCC function in comparison to a reference antibody w hich is an equivalent antibody comprising a native human Fc domain. In a non-limiting embodiment, the ADCC function may be at least lOx enhanced in comparison to the reference antibody comprising a native human Fc domain. In this context "equivalent" may be taken to mean that the antibody with enhanced ADCC function displays substantially identical antigen-binding specificity and/or shares identical amino acid sequence with the reference antibody, except for any modifications made (relative to native human Fc) for the purposes of enhancing ADCC. The antibody may contain the hinge region, CHI domain, CH2 domain and C B domain of a human IgG, most preferably human IgGl . The antibody may include modifications in the Fc region, such as for example substitutions, deletions or insertion or other structural modifications to enhance or reduce Fc-dependent functionalities.
One object of this invention relates to anti-hGARP antibodies or antigen binding fragment thereof which inhibit TGF-β signaling, and that may be particularly suitable for therapeutic applications which benefit from antibody effector function, i.e. ADCC, CDC, ADCP, and in particular enhanced effector function. Hence, the GARP antibodies described herein which exhibit effector function (or enhanced effector function) and which inhibit TGF-β may be particularly advantageous for certain therapeutic applications, e.g. cancer, chronic infection, and fibrosis treatments which benefit from antibody effector function.
Another object of the invention is an isolated polynucleotide sequence encoding the heavy chain variable region of sequence SEQ ID NO: 8 or of SEQ ID NO: 50. Preferably, said nucleic sequence is SEQ ID NO: 10:
ATGGCTGTCCTGGCATTACTCTTCTGCCTGGTAACATTCCCAAGCTGTATCCT TTCCCAGGTGCAGCTGAAGGAGTCAGGACCTGGCCTGGTGGCGCCCTCACA GAGCCTGTCCATCACATGCACCGTCTCAGGGTTCTCATTAACCGGCTATGGT ATAAACTGGGTTCGCCAGCCTCCAGGAAAGGGTCTGGAGTGGCTGGGAATG ATATGGAGTGATGGAAGCACAGACTATAATTCAGTTCTCACATCCAGACTG AGGATCAGTAAGGATAATTCCAATAGCCAGGTTTTCTTAAAAATGAACAGT CTGCAAGTTGATGACACAGCCAGGTACTATTGTGCCAGAGATCGAAACTAC TATGATTACGACGGGGCTATGGACTACTGGGGTCAAGGAACCTCAGTCACC GTCTCCTCA.
Another object of the invention is an isolated polynucleotide sequence encoding the light chain variable region of sequence SEQ ID NO: 9 or of SEQ ID NO: 51. Preferably, said nucleic sequence is SEQ ID NO: 11 :
ATGAAGTTTCCTTCTCAACTTCTGCTCTTCCTGCTGTTCAGAATCACAGGCAT AATATGTGACATCCAGGTGACACAATCTTCATCCTACTTGTCTGTATCTCTA GGAGACAGGGTCACCATTACTTGCAAGGCAAGTGACCACATTAAAAATTGG TTAGCCTGGTATCAGCAGAAACCAGGAATTGCTCCTAGGCTCTTAGTTTCTG GTGCAACCAGTTTGGAAGCTGGGGTTCCTTCAAGATTCAGTGGCAGTGGAT CTGGAAAGAATTTCACTCTCAGCATTACCAGTCTTCAGACTGAAGATGTTGC TACTTATTACTGTCAACAGTATTGGAGTACACCGTGGACGTTCGGTGGAGGC ACCACTCTGGAGATCAGA. Another object of the invention is an expression vector comprising the nucleic sequences encoding the anti-hGARP antibody of the invention, in an embodiment, the expression vector of the invention comprises at least one of SEQ ID NO: 10 and SEQ ID NO: 11 or any sequence having a nucleic acid sequence that shares at least: 60%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity with said SEQ ID NO : 10 and SEQ ID NO : 1 1.
Another object of the invention is an isolated host cell comprising said vector. Said host ceil may be used for the recombinant production of the antibodies of the invention. In an embodiment, host cells may be prokaryotic, yeast, or eukaryotic cells, and are preferably mammalian cells, such as, for example: monkey kidney CVl line transformed by SV40 (COS-7, ATCC CRL 1651); human embryonic kidney line (293 or 293 cells subcloned for growth in suspension culture, Graham et a!., J. Gen. Virol. 36:59 (1977)); baby hamster kidney cells (BHK, ATCC CCL 10); Chinese hamster ovary cells/-DHFR (CHQ, Urlaub et al., Proc. Natl. Acad. Sci. USA 77:4216 (1980)); mouse Sertoli cells (TM4, Mather, Biol. Reprod. 23 :243-25 I (1980) ); mouse myeloma cells SP2/0-AG14 (ATCC CRL 1581 ; ATCC CRL 8287) or NSO (HP A culture collections no. 85110503); monkey kidney cells (CVl ATCC CCL 70); African green monkey kidney cells (VERO-76, ATCC CRL- 1 587); human cervical carcinoma cells (HELA, ATCC CCL 2); canine kidney cells (MDCK, ATCC CCL 34); buffalo rat fiver cells (BRL 3A, ATCC CRL 1442); human lung ceils (W138, ATCC CCL 75); human liver cells (Hep G2, HB 8065); mouse mammary tumor (MMT 060562, ATCC CCL 5 1 ); TRI cells (Mather et al, Annals N.Y. Acad. Sci. 383 :44-68 (1982)); MRC 5 cells; FS4 cells; and a human hepatoma line (Hep G2), as well as DSM's PERC-6 cell line. Expression vectors suitable for use in each of these host cells are also generally known in the art. It should be noted that the term "host cell" generally refers to a cultured cell line. Whole human beings into which an expression vector encoding an antigen binding polypeptide according to the invention has been introduced are explicitly excluded from the definition of a "host cell".
Another object of the invention is a method of producing an anti-hGARP antibody or antigen binding fragment thereof which comprises culturing host cells containing the isolated polynucleotide sequence encoding the anti-hGARP antibody under conditions suitable for expression of the anti-hGARP antibody, and recovering the expressed anti- hGARP antibody. This recombinant process can be used for large scale production of GARP antibodies according to the invention, including antibodies monoclonal antibodies intended for in vitro, ex vivo, in vivo therapeutic, diagnostic uses. These processes are available in the art and will be known by the skilled person.
Another object of the invention is a hybridoma cell line which can be used to produce said antibody of the invention.
A preferred hybridoma cell line according to the invention was deposited with the BCCM/LMBP Plasmid Collection, Department of Biomedical Molecular Biology, Ghent University, Tiers-Schell-Van Montagu' building, Technologiepark 927, B-9052 Gent - Zwijnaarde BELGIUM (Table 2):
Table 2
Figure imgf000068_0001
Fragments and derivatives of antibodies of this invention (which are encompassed by the term "antibody" or "antibodies" as used in thi s application, unless otherwise stated or clearly contradicted by context), preferably a MHGARP8-like antibody, can be produced by techniques that are known in the art. "Fragments" comprise a region of the intact antibody, generally the antigen binding site or variable region. Examples of antibody fragments include Fab, Fab', Fab'-SH, F(ab')2, and Fv fragments; diabodies; any antibody fragment that is a polypeptide having a primary structure consisting of one uninterrupted sequence of contiguous amino acid residues (referred to herein as a "single-chain antibody fragment" or "single chain polypeptide"), including without limitation (1) single-chain Fv molecules (2) single chain polypeptides containing only one light chain variable domain, or a fragment thereof that contains the three CDRs of the light chain variable domain, without an associated heavy chain moiety and (3) single chain polypeptides containing only one heavy chain variable region, or a fragment thereof containing the three CDRs of the heavy chain variable region, without an associated light chain moiety; and multi-specific antibodies formed from antibody fragments. Fragments of the present antibodies can be obtained using standard methods. For instance, Fab or F(ab')2 fragments may be produced by protease digestion of the isolated antibodies, according to conventional techniques. It will be appreciated that immune-reactive fragments can be modified using known methods, for example to slow clearance in vivo and obtain a more desirable pharmacokinetic profile the fragment may be modified with polyethylene glycol (PEG). Methods for coupling and site-specifically conjugating PEG to a Fab" fragment are described in, for example, Leong et al. Cytokines 16 (3): 106- 1 19 (2001) and Delgado et al, Br J. Cancer 73 (2): 1 75- 1 82 (1 996), the disclosures of which are incorporated herein by reference.
Alternatively, the DNA of a hybridoma producing an antibody of the invention, preferably a MHGARP8-like or LHG l O-like antibody, may be modified so as to encode a fragment of the invention. The modified DNA is then inserted into an expression vector and used to transform or transfect an appropriate cell, which then expresses the desired fragment.
In certain embodiments, the DNA of a hybridoma producing an antibody of this invention, preferably a MHGARP8-like or LHG 1 0-like antibody, can be modified prior to insertion into an expression vector, for example, by substituting the coding sequence for human heavy- and light- chain constant domains in place of the homologous non- human sequences {e.g. , Morrison et al., PNAS pp. 6851 ( 1 84 )), or by covalently joining to the immunoglobulin coding sequence all or part of the coding sequence for a non-immunoglobulin polypeptide. In that manner, "chimeric" or "hybrid" antibodies may be prepared that have the binding specificity of the original antibody. Typically, such non-immunoglobulin polypeptides are substituted for the constant domains of an antibody of the invention.
Thus, according to another embodiment, the antibody of this invention, preferably a MHGARP8 or LUG 1 0-like antibody, is humanized. "Humanized" forms of antibodies according to this invention are speci ic chimeric immunoglobulins, immunoglobulin chains or fragments thereof (such as Fv, Fab, Fab', F(ab' )2, or other antigen-binding subsequences of antibodies) which contain minimal sequence derived from the murine immunoglobulin . For the most part, humanized antibodies are human immunoglobulins (recipient antibody) in which residues from a complementary-determining region (CDR) of the recipient are replaced by residues from a CDR of the original antibody (donor antibody) while maintaining the desired specificity, affinity, and capacity of the original antibody.
In some instances, Fv framework ( FR) residues of the human immunoglobulin may be replaced by corresponding non-human residues. Furthermore, humanized antibodies can comprise residues that are not found in either the recipient antibody or in the imported CDR or framework sequences. These modifications are made to further refine and optimize antibody performance. In general, the humanized antibody will comprise substantially all of at least one, and typically two, variable domains, in which all or substantial ly all of the CDR regions correspond to those of the original antibody and al l or substantially all of the FR regions are those of a human immunoglobulin consensus sequence. The humanized antibody optimally also will comprise at least a region of an immunoglobulin constant region (Fc), typically that of a human immunoglobulin. For further details see Jones et al , Nature, 321, pp. 522 (1986); Reichmann et al. Nature, 332, pp. 323 ( 1 88 ); Presta, Curr. Op. Struct. Biol ., 3, pp. 394 (1992); Verhoeyen et al. Science, 239, pp. 1534; and U. S. Patent No. 4,8 16,567, the entire disclosures of which are herein incorporated by reference. Methods for humanizing the antibodies of this invention are well known in the art.
The choice of human variable domains, both light and heavy , to be used in making the humanized antibodies is very important to reduce antigenicity. According to the so- called "best-fit" method, the sequence of the variable domain of an antibody of this invention is screened against the entire library of known human variable-domain sequences. The human sequence that is closed to the mouse sequence is then accepted as the human framework (FR) for the humanized antibody (Sims et al., J. Immunol. 151 , pp. 2296 (1993); Chothia and Lesk, J. Mol. Biol. 196, pp. 901). Another method uses a particular framework from the consensus sequence of all human antibodies of a particular subgroup of light or heavy chains. The same framework can be used for several different humanized antibodies (Carter et al, PNAS 89, pp. 4285 (1992); Presta et al . J. Immunol. , 1 5 1 (1993)). It is further important that antibodies be humanized with retention of high affinity for GARP and other favorable biological properties. To achieve this goal, according to a preferred method, humanized antibodies are prepared by a process of analysis of the parental sequences and various conceptual humanized products using three-dimensional models of the parental and humanized sequences. Three-dimensional immunoglobulin models are commonly avai lable and are familiar to those skilled in the art. Computer programs are available which illustrate and display probable three-dimensional structures of selected candidate immunoglobulin sequences. Inspection of these displays permits analysis of the likely role of the residues in the functioning of the candidate immunoglobulin sequence, i.e., the analysis of residues that influence the ability of the candidate immunoglobulin to bind its antigen. In this way, FR residues can be selected and combined from the consensus and import sequences so that the desired antibody characteristic, such as increased affinity for the target antigen(s), is achiev ed. In general, the CDR residues are directly and most substantially involved in influencing antigen binding. Another method of making "humanized" monoclonal antibodies is to use a XenoMouse (Abgenix, Fremont, CA) as the mouse used for immunization. A XenoMouse is a murine host according to this invention that has had its immunoglobulin genes replaced by functional human immunoglobulin genes. Thus, antibodies produced by this mouse or in hybridomas made from the B cells of this mouse, are already humanized. The XenoMouse is described in United States Patent No 6, 162,963, which is herein incorporated in its entirety by reference. Human antibodies may also be produced according to various other techniques, such as by using, for immunization, other transgenic animals that have been engineered to express a human antibody repertoire (Jakobovitz et al. Nature 362 (1993) 255), or by selection of antibody repertoires using phage display methods. Such techniques are known to the skilled person and can be implemented starting from monoclonal antibodies as disclosed in the present application. In an embodiment, Camehdae hypervariable loops (or CDRs) may be obtained by active immunization of a species in the familv Camehdae with a desired target antigen. As discussed and exemplified in detail herein, following immunization of Camehdae (either the native animal or a transgenic animal engineered to express the immunoglobulin repertoire of a camelid species) with the target antigen, B cells producing (conventional Camehdae) antibodies having specificity for the desired antigen can be identified and polynucleotide encoding the VH and VL domains of such antibodies can be isolated using known techniques.
In an embodiment, the invention provides a recombinant antigen binding polypeptide immunoreactive with a target antigen, the polypeptide comprising a VH domain and a VL domain, wherein at least one hypervariable loop or complementarity determining region in the VH domain or the VL domain is obtained from a VH or VL domain of a species in the family Camehdae, which antigen binding polypeptide is obtainable by a process comprising the steps of:
(a) immunizing a species in the family Camehdae with a target antigen or with a polynucleotide encoding said target antigen and raising an antibody to said target antigen;
(b) determining the nucleotide sequence encoding at least one hypervariable loop or complementarity determining region (CDR) of the VH and/or the VL domain of a Camehdae conventional antibody immunoreactive with said target antigen; and
(c) expressing an antigen binding polypeptide immunoreactive with said target antigen, said antigen binding polypeptide comprising a VH and a VL domain, wherein at least one hypervariable loop or complementarity determining region (CDR) of the VH domain or the VL domain has an amino acid sequence encoded by the nucleotide sequence determined in part (a). Isolated Camelidae VH and VL domains obtained by active immunization can be sed as a basis for engineering antigen binding polypeptides according to the invention. Starting from intact Camelidae VH and VL domains, it is possible to engineer one or more amino acid substitutions, insertions or deletions which depart from the starting Camelidae sequence.
In an embodiment, such substitutions, insertions or deletions may be present in the framework regions of the VH domain and/or the VL domain. The purpose of such changes in primary amino acid sequence may be to reduce presumably unfavourable properties (e.g. immunogenicity in a human host (so-called humanization), sites of potential product heterogeneity and or instability (glycosylation, deamidation, isomerization, etc. ) or to enhance some other favourable property of the molecule (e.g. solubi lity, stability, bioavailability, etc. ).
In another embodiment, changes in primary amino acid sequence can be engineered in one or more of the hypervariable loops (or CDRs) of a Camelidae VH and/or VL domain obtained by active immunization. Such changes may be introduced in order to enhance antigen binding affinity and/or specificity, or to reduce presumably unfavourable properties, e.g. immunogenicity in a human host (so-called humanization), sites of potential product heterogeneity and or instability, glycosylation, deamidation, isomerization, etc., or to enhance some other favourable property of the molecule, e.g. solubility, stability, bioavailabi lity, etc.
The antibodies of the present invention, preferably a MHGARP8 or LHG l O-like antibody, may also be derivatized to "chimeric" antibodies (immunoglobulins) in which a region of the heavy/light chain(s) is identical with or homologous to corresponding sequences in the original antibody, while the remainder of the chain( s) is identical w ith or homologous to corresponding sequences in antibodies derived from another species or belonging to another antibody class or subclass, as well as fragments of such antibodies, so long as they exhibit the desired biological activity and binding specificity (Cabilly et al., supra; Morrison et al., Proc. Natl. Acad. Sci., pp. 685 (1984)). An object of the invention is a composition comprising at least one of the protein of the invention as described here above.
Another object of the invention is a pharmaceutical composition comprising at least one of the protein of the invention as described here above and a pharmaceutically acceptable excipient.
Pharmaceutically acceptable excipients that may be used in these compositions include, but are not limited to, ion exchangers, alumina, aluminum stearate, lecithin, serum proteins, such as human serum albumin, buffer substances such as phosphates, glycine, sorbic acid, potassium sorbate, partial glyceride mixtures of saturated vegetable fatty acids, water, salts or electrolytes, such as protamine sulfate, di sodium hydrogen phosphate, potassium hydrogen phosphate, sodium chloride, zinc salts, colloidal silica, magnesium trisilicate, polyvinyl pyrrolidone, cellulose-based substances (for example sodium carboxymethylcellulose), polyethylene glycol, polyacrylates, waxes, polyethylene- polyoxypropylene- block polymers, polyethylene glycol and wool fat.
Another object of the invention is the protein of the invention for inhibiting TGF-B activity in a subject in need thereof.
Another object of the invention is a method for inhibiting TGF-B activity in a subject in need thereof, comprising administering to the subject an effective amount of the protein of the invention.
Another object of the invention is the protein of the invention or the pharmaceutical composition as defined here above for treating a TGF-B-related disorder in a subject in need thereof.
Another object of the invention is a method for treating a TGF-B-related disorder in a subject in need thereof, comprising administering to the subject an effective amount of the protein of the invention.
Diseases or disorders where the methods of the invention can be used include all diseases where inhibition of TGF- B can be beneficial. Said TGF-B-related disorders include, but are not limited to, inflammatory diseases, chronic infection, cancer, fibrosis, cardiovascular diseases, cerebrovascular disease (e.g. ischemic stroke), and neurodegenerative diseases.
For use in administration to a subject, the composition will be formulated for administration to the subject. The compositions of the present invention may be administered orally, parenterally, by inhalation spray, topically, rectal ly, nasally, buccally, vaginally or via an implanted reservoir. The term administration used herein includes subcutaneous, intravenous, intramuscular, intra-articular, intra-synovial, intrasternal, intrathecal, intrahepatic, intralesional and intracranial injection or infusion techniques.
Sterile injectable forms of the compositions of this invention may be aqueous or an oleaginous suspension. These suspensions may be formulated according to techniques known in the art using suitable dispersing or wetting agents and suspending agents. The sterile injectable preparation may also be a sterile injectable solution or suspension in a non-toxic parenterally acceptable diluent or solvent. Among the acceptable vehicles and solvents that may be employed are water. Ringer's solution and isotonic sodium chloride solution. In addition, sterile, fixed oils are conventionally employed as a solvent or suspending medium. For this purpose, any bland fixed oil may be employed including synthetic mono- or diglycerides. Fatty acids, such as oleic acid and its glyceride derivatives are useful in the preparation of injectables, as are natural pharmaceutically acceptable oils, such as olive oil or castor oil, especially in their polyoxyethylated versions. These oil solutions or suspensions may also contain a long-chain alcohol diluent or dispersant, such as carboxymethyl cellulose or similar dispersing agents that are commonly used in the formulation of pharmaceutically acceptable dosage forms including emulsions and suspensions. Other commonly used surfactants, such as T weens. Spans and other emulsifying agents or bioavailability enhancers which are commonly used in the manufacture of pharmaceutically acceptable solid, liquid, or other dosage forms may also be used for the purposes of formulation.
Schedules and dosages for administration of the antibody in the pharmaceutical compositions of the present invention can be determined in accordance with known methods for these products, for example using the manufacturers' instructions. For example, an antibody present in a pharmaceutical composition of this invention can be supplied at a concentration of 10 mg/mL in either 100 mg (10 inL) or 500 mg (50 inL) single-use vials. The product is formulated for intravenous (IV) administration in 9.0 mg/mL sodium chloride, 7.35 mg/mL sodium citrate dihydrate, 0.7 in g/niL polysorbate 80, and Sterile Water for Injection. The pH is adjusted to 6.5. It will be appreciated that these schedules are exemplary and that an optimal schedule and regimen can be adapted taking into account the affinity and tolerabilitv of the particular antibody in the pharmaceutical composition that must be determined in clinical trials. Another object of the invention is a method for reducing immunosuppression in the tumor environment in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
Another object of the invention is a method for boosting the immune system in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
Another object of the invention is a method for inhibiting the immune suppressive function of human Tregs in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
Another object of the invention is a method for treating cancer in a subject in need thereof comprising administering to the subject a therapeutically effective amount of the protein of the invention.
Another object of the invention is a method for treating cancer in a subject in need thereof, wherein the pharmaceutical composition of the invention is to be administered as an immunostimulatory antibody for treatment of cancer patients. Another object of the invention is a method for treating cancer in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the protein of the invention in combination with another treatment for cancer or an immunotherapeutic agent. Another object of the invention is a combination of the protein of the invention and another treatment for cancer or another immunotherapeutic agent for treating or for use in treating cancer.
In an embodiment of the invention, said immunotherapeutic agent is a tumor vaccine. In another embodiment of the invention, said i m m u not hera peut i c agent is an i m m u no st i m u 1 at ory antibody.
Without willing to be bound to a theory, the inventors believe the protein of the invention will prevent immunosuppression in the tumor environment, thereby increasing the efficacy of the immunotherapeutic agent. Various cancers can be treated by the present invention such as for an adrenocortical carcinoma, anal cancer, bladder cancer, brain tumor, glioma, breast carcinoma, carcinoid tumor, cervical cancer, colon carcinoma, endometrial cancer, esophageal cancer, extrahepatic bile duct cancer, Ewing' s tumor, extracranial germ cell tumor, eye cancer, gall bladder cancer, gastric cancer, germ cell tumor, gestational trophoblastic tumor, head and neck cancer, hypopharyngeal cancer, islet cell carcinoma, kidney cancer, laryngeal cancer, leukemia, lip and oral cavity cancer, liver cancer, lung cancer, lymphoma, melanoma, mesothelioma, merkel cell carcinoma, metastatic squamous head and neck cancer, myeloma, neoplasm, nasopharyngeal cancer, neuroblastoma, oral cancer, oropharyngeal cancer, osteosarcoma, ovarian cancer, pancreatic cancer, sinus and nasal cancer, parathyroid cancer, penile cancer, pheochromocytoma cancer, pituitary cancer, plasma cell neoplasm, prostate cancer, rhabdomyosarcoma, rectal cancer, renal cell carcinoma, salivary gland cancer, skin cancer, Kaposi's sarcoma, T- cell lymphoma, soft tissue sarcoma, stomach cancer, testicular cancer, thymoma, thyroid cancer, urethral cancer, uterine cancer, vaginal cancer, vulvar cancer, or Wilms' tumor.
Suitable tumor antigens for use as a tumor vaccine known in the art include for example : (a) cancer-testis antigens such as NY-ESO- 1 , SSX2, SCP1 as well as RAGE, BAGE, GAGE and MAGE family polypeptides, for example, GAGE- 1 , GAGE-2, MAGE- 1 , MAGE-2, MAGE-3, MAGE-4, MAGE-5, MAGE-6, and MAGE- 12 (which can be used, for example, to address melanoma, lung, head and neck, NSCLC, breast, gastrointestinal, and bladder tumors), (b) mutated antigens, for example, p53 (associated with various solid tumors, e.g., colorectal, lung, head and neck cancer), p2 1 /Ras (associated with, e.g., melanoma, pancreatic cancer and colorectal cancer), CD 4 (associated with, e.g., melanoma), MUM 1 (associated with, e.g., melanoma), caspase-8 (associated with, e.g., head and neck cancer), CIA 0205 (associated with, e.g., bladder cancer), HLA-A2-R1701, beta catenin (associated with, e.g., melanoma), S CR (associated with, e.g., T-cell non-Hodgkins lymphoma), BCR-abl (associated with, e.g., chronic myelogenous leukemia), triosephosphate isomerase, LA 0205, CDC-27, and LDLR- FUT, (c) over-expressed antigens, for example, Ga lectin 4 (associated with, e.g., colorectal cancer), Galectin 9 (associated with, e.g., Hodgkin's disease), proteinase 3 (associated with, e.g., chronic myelogenous leukemia), WT 1 (associated with, e.g., various leukemias), carbonic anhydrase (associated with, e.g., renal cancer), aldolase A (associated with, e.g., lung cancer), FRAME (associated with, e.g., melanoma), HER- 2/neu (associated with, e.g., breast, colon, lung and ovarian cancer), alpha- fetoprotein (associated with, e.g., hepatoma), SA (associated with, e.g., colorectal cancer), gastrin (associated with, e.g., pancreatic and gastric cancer), telomerase catal tic protein, MUC-1 (associated with, e.g., breast and ovarian cancer), G-250 (associated with, e.g., renal cell carcinoma), and carcinoembryonic antigen (associated with, e.g., breast cancer, lung cancer, and cancers of the gastrointestinal tract such as colorectal cancer), (d) shared antigens, for example, melanoma-melanocyte differentiation antigens such as MART-l/Melan A, gp 100, MC1R, melanocyte-stimulating hormone receptor, tyrosinase, tyrosinase related protein- 1 /TRPl and tyrosinase related protein-2/TRP2 (associated with, e.g., melanoma), (e) prostate associated antigens such as PAP, PSA, PSMA, PSH-P1 , PSM-P l , PSM-P2, associated with e.g., prostate cancer, (f) immunoglobulin idiotypes (associated with myeloma and B cell lymphomas, for example), and (g) other tumor antigens, such as polypeptide- and saccharide-contaimng antigens including (i) glycoproteins such as sialyl Tn and sialyl Le<x> (associated with, e.g., breast and colorectal cancer) as well as various mucins; glycoproteins may be coupled to a carrier protein (e.g. , MUC-1 may be coupled to LH); (ii) lipopolypeptides (e.g., MUC-1 linked to a lipid moiety); (iii) polysaccharides (e.g., Globo H synthetic hexasaccharide), which may be coupled to a carrier proteins (e.g., to KLH), (iv) gangliosides such as GM2, GM 12, GD2, GD3 (associated with, e.g., brain, lung cancer, melanoma), which also may be coupled to carrier proteins (e.g. , KLH). Other tumor antigens include pi 5, Hom/Mel-40, H-Ras, E2A-PRL, H4-RET, IGH- IGK, MYL- RAR, Epstein Barr vims antigens, EBNA, human papillomavirus (IIPV) antigens, including E6 and E7, hepatitis B and C virus antigens, human T-cell lymphotropic virus antigens, TSP- 180, pl85erbB2, pl80erbB-3, c-met, mn-23H 1, TAG-72-4, CA 19-9, CA 72-4, CAM 17.1 , NuMa, K-ras, p 16, TAGE, PSCA, CT7, 43-9F, 5T4, 791 Tgp72, beta-HCG, BCA225, BTAA, CA 125, CA 15-3 (CA 27.29\BCAA), CA 195, CA 242, CA-50, CAM43, CD68VKP1, CO-029, FGF-5, Ga733 (EpCAM), HTgp-175, M344, MA-50, MG7-Ag, MOV 1 8, NB/70K, NY-CO- 1, RCAS l , SDCCAG 16, TA-90 (Mac-2 binding p rot ei n \c y c 1 o p h i 1 i n C-associated protein), TAAL6, TAG 72, TLP, TPS, and the like.
Suitable immunostimulatory antibodies include, but are not limited to: anti-CTLA-4, anti-PD l , anti-PDL 1 and anti- IR antibodies. In an embodiment of the invention, the method for treating cancer in a subject in need thereof, comprises administering to the subject the protein of the invention prior to, concurrent to and/or posterior to another anti-cancer agent or cancer treatment, such as chemotherapy treatment.
Another object of the present invention is a method to prevent infectious diseases such as HIV, malaria, or Ebola, or improve vaccination against these infections, comprising administering to the subject a therapeutically effective amount of the protein of the invention.
In an embodiment, the protein of the invention may be used /// vitro or in vivo to identify samples, tissues, organs or cells that express GARP. Examples of assays in which the protein of the invention may be used, include, but are not limited to, ELISA, sandwich ELISA, RIA, FACS, tissue immunohistochemistry, Western-blot, and immunoprecipitation. In an embodiment of the invention, the sample is a biological sample. Examples of biological samples include, but are not limited to, bodily fluids, preferably blood, more preferably blood serum, plasma, synovial fluid, bronchoalveolar lavage fluid, sputum, lymph, ascitic fluids, urine, amniotic fluid, peritoneal fluid, cerebrospinal fluid, pleural fluid, pericardial fluid, and alveolar macrophages, tissue lysates and extracts prepared from diseased tissues.
In an embodiment of the invention, the term "sample" is intended to mean a sample taken from an individual prior to any analysis.
In another embodiment, the protein of the invention may be labeled for diagnostic or detection purposes. By labeled herein is meant that a compound has at least one element, isotope or chemical compounds attached to enable the detection of the compound. Examples of labels include, but are not limited to, isotopic labels such as radioactiv e or heavy isotopes; magnetic, electric or thermal labels and colored or luminescent dyes. For example: lanthanide complexes, quantum dots, fluorescein, rhodamine, tetramethylrhodamine, eosin, erythrosin, coumarin, methyl-coumarins, pyrene, malachite green, stilbene, Lucifer yellow, cascade blue, texas red, alexa dyes, cy dyes.
One object of the invention is a method for identifying activated Tregs in a sample ba sed on the use of the protein of the in vention. Another object of the inv ention is a method for identifying soluble or complexed latent TGF-β based on the use of the protein of the invention.
Another object of the inv ention is a kit comprising at least one protein of the invention.
By "kit" is intended any manufacture (e.g., a package or a container) comprising at least one reagent, i.e. for example an antibody, for specifically detecting the expression of GARP. The kit may be promoted, distributed, or sold as a unit for performing the methods of the present invention. Furthermore, any or all of the kit reagents may be provided within containers that protect them from the external env ironment, such as in sealed containers. The kits may also contain a package insert describing the kit and methods for its use.
Kits for performing the sandwich EL IS A. methods of the invention generally comprise a capture antibody, optionally immobilized on a solid support (e.g., a microtiter plate), and a revelation antibody coupled with a detectable substance, such as, for example HRP, a fluorescent label, a radioisotope, beta-galactosidase, and alkaline phosphatase.
EXAMPLES
The present invention is further illustrated by the following examples.
Example 1 : New monoclonal antibodies directed against human GARP (anti-hGARP monoclonals)
DBA/2 or Balb/c mice were immunized with murine PIHTR cells transfected with human GARP. Sera from immunized mice were tested for the presence of anti-hGARP antibodies, by screening for binding to hGARP-expressing BW cells by FACS. Splenocytes from mice with high titers of anti-hGARP antibodies were fused to SP2/neo cells. Hybridomas were selected in HA T medium and cloned under limiting dilution. Supernatants of +/- 1600 hybridoma clones were screened by FACS for the presence of antibodies binding to hGARP-expressing BW cells. Thirty-eight clones producing anti-hGARP monoclonal antibodies were identified in this screening. Nine clones were selected and amplified for large scale-production and purification of nine new anti-hGARP monoclonals (MHGARP 1 to 9).
As shown in Figure 1, MHGARP 1 to 9 bind to murine BW5 147 cells transfected with hGARP, but not to untransfected cells. MHGARP 1 to 9 also bind 293T cells transfected with hGARP and two human T cells lines (clone Th A 2 and Jurkat) transduced w ith a hGARP-encoding lentivirus, but not the corresponding parental cells (not shown). This recognition pattern is identical to that of a commercially avai lable anti-hGARP mAb (clone Plato- 1 ) used here as a positive control. These results show that MHGARP 1 to 9 recognize hGARP on cell surfaces. As shown in Figure 7, five additional MHGARP antibodies were produced and purified. MHGARP antibodies ( MUG- 1 to -14 on the figure) do not bind clone ThA2 (human CD4+ T helper cells, which do not express hGARP), but bind ThA2 transduced with hGARP. Example 2: MHGARP8. but none of 12 other anti-hGARP monoclonal s. inhibits active TGF-β production by human Treg ceils
A human Treg clone (1E+06 cells/ml) was stimulated in serum-free medium with coated anti-CD3 (1 iig/ml) and soluble anti-CD28 (1 iig/'ml) antibodies, in the presence or absence of 20 Lig/ml of an anti-hGARP monoclonal antibody. Thirteen anti-hGARP monoclonals were tested in this assay: the above mentioned nine new monoclonal s (MHGARP 1 to 9), and commercially available antibody clones Plato- 1 (Enzo Life Sciences, catalog No. ALX-804-867), 272G6 (Synaptic Systems, catalog No. 221 1 1 1), 50G 10 (Synaptic Systems, catalog No. 221 Oi l) and 7B 1 1 (BioLegend, catalog No. 352501). Cells were collected after 24 hours, lysed and submitted to SDS-PAGE under reducing conditions. Gels were blotted on nitrocellulose membranes with the iBlot system (Life Technologies). After blocking, membranes were hybridized with primary antibodies directed against phosphorylated SMAD2 (pSMAD2, Cell Signaling Technologies) or B-ACTIN (SIGMA), then hybridized with secondary HRP-coupled antibodies and revealed with Enhanced ChemiLuminescent (ECL ) substrate (ThermoFi slier Scientific). The presence of pSMAD2 indicates production of active TGF-B I by the stimulated Treg clone. ECL signals were quantified by measuring the density of the 55 kDa pSMAD2 and 40 kDa B-ACTIN bands on autoradiographs, using the Image J software.
To examine whether hGARP is required for active TGF-B production by TCR- stimulated Treg cells, a human Treg clone was stimulated through its T cell receptor (TCR), alone or in the presence of anti-hGARP mAbs. Active TGF-B produced by stimulated Tregs triggers an autocrine signal, which leads to the phosphorylation and activation of SMAD2 and SMAD3 transcription factors. The presence of phosphorylated SMAD2 (pSMAD2) was measured by Western Blot (WB) as read-out for active TGF-B production by the stimulated Treg clone. As shown in Figure 2, pSMAD2 was reduced more than 10 fold in the presence of MHGARP8. This reduction is similar to that observed in the presence of an anti-TGF-β mAb, used here as a positive control. None of the twelve other anti-hGARP mAbs (eight other in-house produced MHGARP and four commercially available anti-GARP antibodies) inhibited active TGF-β production by the Treg clone. Altogether, our data demonstrate that GARP is required for active TGF-13 production by human Tregs, as MHGARP8, an antibody directed against hGARP, prevented active TGF-B production.
Example 3 : MHGARP8. but not other anti-hGARP mAbs. recognizes a conformational epitope that requires the presence of TGF-13 Mapping the regions recognized by anti-hGARP monoclonals
Murine BW5147 T cells were electroporated with plasmids encoding the HA-tagged proteins schematized in Figure 3, part A, corresponding to hGARP, mGARP or mGARP/hGARP chimeras. Stable clones selected in neomycin were stained with biotinylated anti-hGARP antibodies (anti-hGARP 1 to 9) and streptavidin-PE, with the commercial anti-hGARP antibody (clone Plato- 1 ) and a secondary a n t i - m 1 gG 2 b- A F488 , or with an anti-HA antibody and secondary anti-mouse IgG I -AF488. Histograms are gated on live cells. Black histograms show signals on untransfected BW cells, white histograms show signals on BW cells expressing the HA-tagged hGARP, and grey histograms show signals on BW cells expressing HA-tagged mGARP or mGARP/hGARP chimeras.
Parental BW5 147 T cells (BW non-transfected ) or clones stably transfected with hGARP alone ( BW + hGARP) or with hTGFB 1 (BW ÷ hGARP + hTGF- Bl) were stained with biotinylated anti-hGARP antibodies (anti-hGAR l to 9) and streptavidin- PE, with the commercial anti-hGARP antibody ( clone Plato- 1 ) and a secondary anti- mIgG2b-AF488, or with anti-mLAP-AF647 or anti-hLAP-APC antibodies.
The mechanism by which MHGARP8, but not other anti-hGARP mAbs, inhibits active TGF-β production by Tregs was investigated. It was hypothesized that MHGARP8 may recognize an epitope in hGARP that is distinct from the epitopes recognized by the other anti-hGARP mAbs.
With the exception of MHGARP-1, the MHGARP mAbs of the instant application do not recognize murine GARP (mGARP). Plasmids were therefore constructed encoding HA-tagged hGARP, mGARP or hGARP/mGARP chimeras to map the hGARP regions recognized by the mAbs of the instant application. Murine BW cells were transfected and stable clones were derived expressing the HA-tagged proteins (schematically represented in Figure 3). All clones expressed similar levels of HA-tagged protein on the surface, as indicated by similar fluorescence intensities after staining with an anti- HA mAb (Figure 3, part A). As expected, all the MHGARP mAbs bound to the clone expressing HA-tagged hGARP, whereas none, except MHGARP- 1 , bound to the clone expressing HA-tagged mGARP Four groups of mAbs emerged from the analysis of binding to the HA-tagged hGARP/mGARP chimeras (Figure 3, part A). Monoclonal antibodies in the first group (MHGARP-6, -7 and -9) bound none of the chimeras, indicating that they recognize an epitope located between aa 20 and 101 of hGARP (region 20- 10 1 ). mAbs in the second group (MHGARP-2, -3 and -8) bound to only 1 of the 5 chimeras, and thus recognize an epitope in region 1 0 1 - 14 1 . A third group comprises MHGARP-5, which bound to 2 of the chimeras and therefore recognizes region 14 1 -207. This group probably al o contains MHGARP- 1 , w hich is cross-reactive but bound these 2 chimeras more efficiently than it bound mGARP or the 3 other chimeras. Finally, mAbs in the fourth group (MHG.ARP-4 and Plato- 1 ) bound 4 of the 5 chimeras, and thus recognize region 265-333.
Based on the above, the anti-hGARP mAbs were grouped into four families of antibodies that recognize four distinct regions of the hGARP protein. MHGARP-8, which displays neutralizing activity, binds to region 10 1 - 14 1 . This region is also recognized by MHGARP-2 and -3, which are not neutralizing. Therefore, the ability to bind region 10 1 - 14 1 is not sufficient to confer neutralizing activity .
To further define the epitopes recognized by MHGARP-2, -3 and -8, the binding of the anti-hGARP antibodies was compared to clones of BW cells expressing hGARP alone (BW+hGARP), or hGARP and hTGF-1 1 (BW+hGARP+hTGF-Bl). With the notable exception of MHGARP8, all anti-hGARP antibodies stained B W+hGARP+hTGF-β 1 with the same intensity as BW+hGARP, indicating that the two clones express the same levels of hGARP on the cell surface. The MHGARP8 antibody in contrast, stained B W+hG ARP+hTGF-β I more intensely than BW+hGARP (Figure 3, part B). This indicates that although hGARP levels are similar on the two clones, the epitope recognized by MHGARP8 is more abundant on BW+hGARP+hTGF-B 1 than on BW+hGARP cel ls.
A plausible explanation for this observation is that the epitope recognized by MHGARP8 appears only when hGARP is bound to murine (m) or human (h) TGF-B 1 . This could be due to one of two mechanisms: either the epitope comprises amino-acids from both hGARP and TGF-Bl (mixed conformational epitope), or it comprises amino- acids from hGARP only, but that adopt a different conformation in the presence of TGF-β 1 (binding-induced conformational epitope). BW cells express murine TGF-Bl, and murine TGF-Bl binds to hGARP ( Figure 3, part B). Therefore, binding of M HGARP8 to BW + hGARP (in the absence of transfected h'TGF-B 1 ) could be due to recognition of hGARP/niTGF-B 1 complexes.
To explore the hypothesis that MHGARP8 recognizes GARP when it is bound to TGF- B l, co-immunoprecipitation experiments were performed. The different anti-GARP antibodies were used to immunoprecipitate GARP from BW+hGARP+hTGF-Bl cells, then analyzed to determine if TGF-B was co-immunoprecipitated with GARP As shown in Figure 3, part C, all anti-GARP antibodies efficiently immunoprecipitated GARP (Figure 3, part C, top panels). Co-immunoprecipitation of TGF-B l was observed with MHGARP-6, -7, -8, and -9 mAbs, indicating that these antibodies bind GAR bound to TGF-B 1 . In contrast, MHGARP-1, -2, -3, -4 and -5 immunoprecipitated GARP as efficiently as the other anti-GARP mAbs, but they did not co-immunoprecipitate TGF-B (Figure 3, part C, bottom panels). This indicates that MHGARP- 1 , -2, -3, -4 and -5 recognize free GARP, but not GARP that is bound to TGF-B. It is important to note that MHGARP-2 and -3, which require the GARPioi-141 region for binding, recognize only free GARP, whereas neutralizing MHGAR 8, which also requires GARPnn-m , recognizes GAR bound to TGF-B. To confirm this observation, 293T cells, which express low levels of endogenous TGFBl, were used to co-transfect hGARP with increasing amounts of hTGFBl (Figure 3, part D). Binding of MHGARP- l , -2, -3, -4 and -5 decreased dose-dependently when hTGFBl was co-transfected with hGARP. It was completely abrogated at the highest doses of hTGFBl . This confirms that MHGARP- l to -5 bind only free GARP. Binding of MHGARP-6, -7, and -9 was not modified by co-transfection of hTGFBl, indicating that these niAbs bind hGARP whether or not it is bound to TGF-B 1 (i.e. they bind both free GARP and GARP bound to TGF-B 1). In striking contrast, binding of MHGARP8 increased dose-dependently when hTGFBl was co-transfected with hGARP. This suggests again that in contrast to all other antibodies, MHGARP8 does not bind free GARP, but only GARP bound to TGF-B 1.
To demonstrate that MHGARP8 binding requires the presence of TGF-B 1 , siRNAs were used to silence the expression of TGFBl in Jurkat cells transduced with hGARP (Figure 3, part E). The siRNA against TGFBl mRNA efficiently reduced expression of TGF-B 1, as illustrated by the decrease in surface LAP detected on Jurkat ; hGARP cells (Figure 3, part E, right panel). Reduced expression of TGF-B 1 in Jurkat+hGARP decreased the binding of the MHGARP8 antibody, but it did not modify the binding of the other anti-GARP antibodies (Figure 3, part E, foreground histograms). This confirms that in contrast to the other anti-GARP antibodies, MHGARP8, does not bind free GARP, but only binds GARP in the presence of TGF-B I .
Finally, the unlikely hypothesis that presentation of TGF-B on the cell surface, irrespective of hGARP expression, is sufficient for binding by MHGARP8, was evaluated. In other words, whether MHGARP8 recognizes a mixed or a binding- induced conformational epitope that requires expression of both hGARP and TGF-B was analyzed. For this, 293 T cells were transfected with constructs encoding hGARP, mGARP or the hGARP/mGARP chimeras described above, with or without a construct encoding hTGF-Bl . Transfected cells were analyzed by FACS to measure binding of the MHGARP8 antibody, and presentation of hTGF-Bl on the cell surface with an anti- liLAP antibody (Figure 4). By comparison to unstransfected cells, transfection of hGARP, mGARP or hGARP/mGARP constructs alone (no hTGFBl ) induced low levels of surface L AP, due to low levels of endogenous hTGFB l expression (Figure 4, part A, left). Surface LAP levels dramatically increased upon transfection of hTGFB l in cells transfected with liGARP, mGARP, or any liG A RP/mG A RP contruct (Figure 4, part B, left histogram). This indicates that hTGF-Bl is presented on the cell surface by hGARP, by mGARP and by all the hGARP/mGARP chimeras. Importantly, M1IGARP8 bound only to the surface of cells transfected with hGARP, or with the hGARP/mGARP constructs encoding amino-acids 101 to 14 1 of hG ARP (Figure 4, part A B, right). It did not bind to cells transfected with hTGFB l and mGARP, nor to cells transfected with hTGFB l and hGARP/mGARP constructs that do not encode hGARP 10 1 - 14 1 ( Figure 4, part B, right), although these cells presented high levels of LAP on their surface (Figure 4, part B, left). This demonstrates that presentation of TGF-β 1 on the cell surface (by mGARP or hGARP/mGARP chimeras) is not sufficient for binding by MFIGARP8. Binding of MHGARP8 requires the presence of both hG ARP (region 10 1 - 14 1 ) and T'GF-B 1 on the cell surface. As indicated above, MHGARP8 does not bind mGARP. Its binding to hGARP requires a region comprising amino-acids 101 to 141. To further define the epitope recognized by MHGARP8, the sequences of region 10 1 - 14 1 in human and murine GARP were compared. In this region, only 13 amino-acids differ between hGARP and mGARP (Figure 5, amino-acids highlighted by grey boxes). Three HA-tagged mutant forms of hGARP were constructed. In each mutant (Mut I, Mut II and Mut III), three consecutive amino-acids were replaced by the corresponding amino-acids of the mG ARP protein ( Figure 5, black boxes). Stable clones of BW cells transfected with these HA-tagged forms of wild type (WT) or mutant hGARP were derived. All clones expressed similar levels of HA-tagged protein on the surface, as demonstrated by staining with an anti- HA antibody (Figure 5, histograms on the right). The clones were then analyzed after staining with MHGARP-2, -3 and -8, i.e. , antibodies which require region 101 -141 of hGARP for binding. The three antibodies bound to cells expressing WT, Mut I and Mut II forms of hGARP. In contrast, binding was greatly reduced on cells expressing the Mut III form of hGARP, indicating that MHGARP-2, -3 and -8 require amino-acids 137-138-139 of hG ARP for binding. Altogether, the data show that MHGARP8 is the only available anti-GARP antibody that inhibits active TGF-Bl production by human Tregs. This neutralizing activity is linked to binding of MHGARP8 to an epitope that is distinct from those bound by all other anti-GARP antibodies: binding of MHGARP8 requires both region 101-141 of hGARP and the presence of hTGF-B, whereas binding of non-neutralizing antibodies require other regions of hGARP (for MHGARP- 1 , -4, -5, -6, -7 and -9), or occurs only in the absence of TGF-Bl (for MHGARP-2 and -3). In region hGARP 101-141, amino- acids 137 to 139 are required for the binding of MHGARP-2, -3 and -8.
The affinity of the MHGARP8 antibody to immobilized shGARP-TGFp was measured by BIACOR analysis. The Kd of said antibody is 0.2 ii .
Example 4: MHGARP8 inhibits human Treg cell function in vivo
To examine whether MHGARP8 also inhibits human Tregs /// vivo, a model of xenogeneic GvHD induced by transfer of human PBMCs (Peripheral Blood Mononuclear Cells) into immuno-compromised NO D-S i - 1 L 2 Rg" " (NSG) mice was used. SG mice lack functional T, B and NK cells. This allows efficient engraftment of human hematopoietic stem cells (FISCs), which proliferate and generate a functional human immune system in recipient mice. When human PBMCs are used instead of HSCs, efficient engraftment of T cells occurs, but is soon accompanied by the development of a xenogeneic Graft-versus-Host Disease (GvHD). In this model, GvHD results from the activity of human donor cytotoxic T lymphocytes that recognize tissues of the recipient NSG mice as foreign (Shultz, et al. Nature 2012, 12:786-798). The severity of the GvHD can be decrea sed by co-transferring human Treg cells with human PBMCs (Harmon et al. Transfusion 2014).
Human PBMCs were isolated from total blood of a hemochromatosis donor by centrifugation on density gradients ( Ly mphoprepTM ), and frozen for later use. Autologous Tregs were generated as follows: CD4+ T cells were isolated from the blood of the same donor using the RosetteSepTM Human CD4+ T Cell Enrichment Cocktail (StemCell Technologies) and stained with anti-CD4, anti-CD25 and anti- CD 127 antibodies coupled to fluorochronies. CD4+CD25hiCD1271o cells were sorted by flow cytometry (>99% purity) then stimulated with anti-CD3/CD28 coated beads (Dynabeads® Human T-Activator CD3/CD28 for T-Cell Expansion and Activation, Life Technologies) in the presence of IL-2 (120 lU/ml) during 14 days. These expanded Treg cells were frozen for later use. NSG mice were irradiated (2.5 Gy) on day -1, then injected in the tail vein with human PBMCs (2.7x106 per mouse) alone, or mixed with expanded human Tregs (1.4x106 per mouse) on day 0. Mice also received weekly i.p. injections of MHGARP8 antibody (400 ,ug on day -1 (day minus 1), 200 iig at later time points), or control PBS. Mice were monitored bi-weekly for GvHD development as indicated in the text. Human PBMCs ith or without Tregs were transferred into NSG mice, and the mice were treated with i.p. injections of MHGARP8 antibody or control PBS. The large number of human Treg ceils required for the transfers were obtained through short in vitro amplification of CD4+CD25+CD1271o cells sorted from human PBMCs by flow cytometry. Objective signs of GvHD dev elopment in the recipient mice were monitored bi-weekly. We performed two independent experiments, which yielded similar results. In experiment 1 (Figure 6, part A), signs of GvHD (mean score >1) appeared 29 days after injection of human PBMCs (group I; n=2). Disease severity increased quickly, and one of the 2 mice was euthanized for ethical reasons on day 55. In mice injected with PBMCs and Tregs (group II; n=3), the appearance of GvHD was delayed by comparison to PBMCs alone (mean score >1 reached after 58 days). This indicates that Tregs, as expected, partially protected NSG mice against Gv HD. Importantly, treatment of mice receiving PBMCs and Tregs with the MHGARP8 antibody (group III, n=6) aggravated the disease: signs of GvHD appeared earlier (36 days) than in mice from group II. The effect of MHGARP8 appears to depend on the presence of Tregs, as no difference in disease score was observed between mice receiving PBMCs only (group I) or PBMCs and MHGARP8 (group IV; n=4). This experiment was repeated with a larger number of mice per group (Figure 6, part B). Again, co-injection of Tregs with PBMCs delayed the appearance of GvHD by comparison to PBMCs alone (day 46 in group II versus day 28 in group I), and treatment with the MHGARP8 antibody aggravated GvHD in mice receiving PBMCs and Tregs (day 28 in group III) by comparisons to untreated mice (day 46 in group II). Altogether, this shows that MHGARP8 inhibits the immune-suppressive function of human Tregs in vivo.
Example 5 : New anti-hGARP monoclonal antibodies (mAbs) using Immunization of llamas approach Production of recombinant soluble GARP-TG Fp i complex
Human and murine GARP-TGFpl complex was produced as a soluble complex using a truncated GARP expression construct. The human GARP protein sequence was truncated after Leucine 628, followed by a cleavable TEV-3x strep tag (EAAENLYFQGAAWSHPQFEKGAAWSHPQFEKGAAWSHPQFEKGAA*)
(SEQ ID NO: 40). Murine GARP protein sequence was tmncated after leucine 629, followed by the same cleavable TEV-3x strep tag. The GARP-TGFf] 1 complexes were produced by co-expression of the truncated GARP and the ΤΟΡβ Ι in HEK293E cells, followed by purification via the Strep-Tag.
Immunization of llamas Immunizations of llamas and harvesting of peripheral blood lymphocytes (PBLs) as well as the subsequent extraction of RN A and amplification of antibody fragments were performed as described by De Haard and colleagues (De Haard H, et al., J. Bact. 187:4531-4541 , 2005). Four llamas were immunized with BW cells over-expressing human GARP and TGF βΐ (Figure 7, part A) as confirmed by flow cytometry using M HGARP8 (MHG-8) monoclonal antibody described in this patent application. The llamas were immunized with intramuscular injections in the neck once per week for a period of six weeks. Approximately 107 cells were injected into the neck muscles and Freund' s incomplete adjuvant was injected in a second region located a few centimeters from the injection site of the cell s. Another four llamas were immunized with a mix of human GARP cDNA and human TGFf] 1 cDNA expression vectors, once per two weeks, with four repetitive injections.
Blood samples of 10 ml were collected pre- and post-immunization to investigate the immune response. Three to four days after the last immunization, 400 ml of blood was collected for extraction of total RNA from the PBLs prepared using a Ficoll-Paque gradient and the method described by Chomczynski P, et al, Anal. Biochem. 162: 156- 159, 1987. On average, RNA yields of 450 μg were achieved, which was used for random cDNA synthesis and PGR amplification of the V-regions of the heavy and the light chains (Υλ and VK) for construction of the Fab containing phagemid libraries as described by De Haard H et al., (J Biol Chem. 1999 Jun 25; 274(26): 18218-30), to obtain diverse libraries of good diversity (l -7x l08).
The immune response to the GARP-TGF β ΐ complex was investigated by ELISA on coated recombinant soluble GARP-TGF β ΐ complex (l ^ig/ml). Five-fold serial dilutions of sera, starting from 10% sera were prepared and 100 μΐ of diluted sera was added onto the coated wells and incubated for 1 hour at RT. After washing with 3 x PBS/Tween, the plates were blocked with PBS supplemented with 1% casein (Figure 8). Binding of conventional llama IgG I to its target GARP-TGF was measured in ELISA using a mouse anti llama IgG 1 antibody (clone 27E10, Daley LP, et al. Clin. Diagn Lab Immunol. 1 2, 2005) and a HRP-conjugated donkey anti-mouse antibody (Jackson) for detection.
Selections and screenings of GARP-TG Fp i specific Fabs
Phage expressing Fabs were produced according to standard protocols and selections performed on immobilized recombinant soluble G ARP-TGF|] 1 with total elution of the GARP-TGF I binding phage with trypsin according to standard phage display protocols.
Two to three rounds of selections were performed to enrich for human GARP-TGF i specific Fabs expressed by the phage. hGARP and ΙιΤΟΡβΙ (LAP) counter selections were used to enrich for Fabs binding the hGARP-TGF i complexes. Individual colonies were isolated and periplasmic fractions (peris) in 96- well plates were produced by IPTG induction from all the libraries according to standard protocols. Screening of the hGARP-TGFf] specific Fabs was performed using ELISA. hGARP- TGF i was immobilized on a maxisorb plate. After blocking with 1% casein in PBS for I h. Fab from 20μ1 periplasmic extracts were allowed to bind to hGARP-TGFf] 1 .
Characterization of monoclonal antibodies GARP-TGF 1 /GARP specific clones were sequenced in the VH and the VL regions and divided into VH families based on the sequence of the CDR3 in the VH. Seventeen families were identified. Of each VH family identified at least one representative clone was cloned into a full human IgGl (LHG 1 -LHG 1 7). These monoclonal antibodies were analyzed on Biacore for their binding characteristics to soluble human GARP-TGF(3 1 complex. Recombinant soluble human GARP-TGFpi was immobilized at approximately 4,000 RU on a CM 5 chip (GE Healthcare).
Binding of monoclonal antibodies to the human and cynomoigus GARP-TGFpl complex expressed on HEK-293 cells was analyzed by FACS. Cynomoigus GARP and cynomoigus ΤΟΡβ 1 encoding sequences were cloned from a cDNA sample from cynomoigus peripheral blood lymphocytes (PBMCs). Primers were based on the predicted sequences of cynomoigus GARP (XM 005579 140. 1 ; SEQ ID NO: 41) and cynomoigus TGFpl ( XM 005589338. 1 ; SEQ ID NO: 42) by amplification of overlapping parts of the full sequence. For both cynomoigus GARP and cynomoigus TGFP 1 three separate PCR amplicons were DNA sequence analyzed. They fully aligned with the predicted sequences. Cynomoigus GARP and cynomoigus ΤΟΡβΙ were cloned into pCDNA3. 1 for transient over-expression in HEK293E cells. Binding to cynomoigus GARP-TGF(3 1 was compared to binding to human GARP-TGFfj 1 on FACS. LHG- 10 and the shuffled variants (LHG- 10.3 to LHG- 10.6) can be considered as cross-reactive w ith cynomoigus GARP-T GF 1 (Figure 9). Primers used:
>cyno TGFB S I : cgcctc CCCCATGCCG ccctccg (SEQ ID NO: 43)
>cyno TGFB S2: acaattcctg gcgatacctc (SEQ ID NO: 44)
>cyno TGFB AS 1 : CTC A ACC ACTGCCGC AC A AC ( SEQ ID NO: 45 ) >cyno TGFB AS2: TCAGCTGCATTTGCAGGAGC (SEQ ID NO: 46)
VK shuffling for improved affinity
VK chain shuffling was used to improve the affinity of the mAb LHG- 10 (Figure 10). In this method, the heavy chain of the parental clone (VHCH 1 of LHG- 10) was reintroduced in the phagemid-light chain library. The heavy chain was extracted from an expression vector, which lacks the bacteriophage derived gene 3 necessary for display, to further avoid contamination of the parental light chain in the selection procedure. The heavy chain was cloned into the phagemid-light chain library and the ligated DN A was electroporated into E.coli TGI cells to create the light chain shuffled library. The size of libraries was above 108.
Affinity selections, combined w ith off-rate washes, were performed to select for chain shuffled Tabs with an improved affinity for human GARP-TGF(3 1 . A set-up was chosen where Fab expressing phages were incubated with different concentrations of recombinant soluble human GARP-TGFpi directly coated to the microsorb plate.
By adding the recombinant soluble human GARP-TGPP 1 in excess over the coated recombinant soluble human GARP-TGFpi, the binding of the higher affinity phage was favored. Each round the time of washing was increased (Table 3) to select for phages with a better off-rate by washing away the lower affinity variants. Phages were eluted with trypsin and used for infection of E. coli TG 1 cells. In total, five rounds of selection were done. In addition the amount of input phage was decreased in subsequent rounds to reduce background on the one hand and on the other hand to lower the mAb concentration thereby increasing the stringency of the selection. Table 3 : Parameters varied for each round of selection for VK shuffling
Figure imgf000094_0001
Screenings of at least 24 clones from selection rounds III, IV and V were performed. The clones were grown in deep well plates (1 ml expressions) and periplasmic fractions were prepared. These periplasmic extracts were analyzed on Biacore for improved off- rates. Top four Fab clones with improved off-rates were cloned into hlgGl (LHG- 10 series) and also an effector-dead variant hlgGl with an N297Q substitution in the Fc region (LHG-IO-D series), and the resultant IgGs were analyzed for improved binding characteristics on Biacore (Table 4). In addition, the LHG- 10-D IgGs were checked for cross-reactivity on cyno GARP/cyno TGF-β 1 in a FACS-based assay using HEK-293E cells transfected with cyno GARP/cyno TGFf] 1 or human GARP/human TGF(31 . MFIGARP8 was also tested in this cross-reactivity assay. All LHG-IO-D and MHG-8 are cross-reactive against cyno GARP/cyno TGFf] 1 (Figure 9).
Table 4: Binding characteristics of shuffled clones
Figure imgf000095_0001
Example 6: Two anti-hGARP mAbs ( MHGARP8 and LHG- 10) inhibit active TGF-Bl production by human Tregs Stimulated human Tregs produce active TGF-B l close to their cell surfaces. Autocrine and paracrine TGF-Bl activity induces SMAD2 phosphorylation in Tregs themselves, and in Th cells co-cultured with Tregs (Stockis, J. et al. Eur. J. Immunol. 2009, 39:869- 882). To test if GARP is required for TGF-Bl activation by Tregs, human Tregs were stimulated in the presence or absence of anti-hGARP mAbs, and phosphorylation of SMAD2 was measured by Western Blot. As a source of human Tregs we used CD4+CD25hlCD127l0 cells sorted from PBMCs and amplified in vitro during 12-14 days (Gau thy E et al PLoS One. 2013 Sep 30;8(9):e761.86). As determined by methyl- specific qPCR, amplified cell populations contain 44 to 82% cells with a demethylated FOXP3H allele, indicating that they are still highly enriched in Tregs.
As expected, phosphorylated SMAD2 was detected in the stimulated Tregs, but not in non-stimulated Tregs, nor in Tregs stimulated in the presence of a neutralizing anti- TGF-Bl antibody (Figure 1 1). Phosphorylated SMAD2 was greatly reduced in Tregs stimulated in the presence of MHGARP8 (named MHG-8 on Figure 1 1 , part A) or LHG- 10 (Figure 1 1, part B), indicating that these two anti-hGARP mAbs block active TGF-β production. The 29 other new anti-hGARP mAbs, as well as four commercially available anti-hGARP mAbs, did not block TGF-13 production by Tregs (Figure 1 1). The inhibitory activity of MHGARP8 and LHG- 10 shows that GARP is required for active TGF-Bl production by human Tregs.
Example 7: MHGARP8 and LHG-10 inhibit the suppressive activity of human Tregs in vitro
We previously showed that human Tregs suppress other T cells at least in part through production of active TGF-β I ( Stockis, J. et al. Eur. J. Immunol. 2009, 39:869-882). We therefore tested whether MHGARP8 ( MHG-8) and LHG- 10 also inhibit human Treg function in in vitro suppression assays. A Treg clone was used as a source of Tregs, and freshly isolated CD4 CD25 CD 127hi cells or a CD4 T cell clone (Th cells) as targets for suppression. Tregs and Th cells were stimulated with >CD3 and >CD28 in the presence or absence of various additional mAbs. As shown in Figure 12, clone Treg A 1 inhibited the proliferation of CD4+CD25"CD127hl Th cells by 66 % in the absence of anti-hGARP mAb. Suppression was reduced to 36% and 32% in the presence of MHG- 8 or LHG- 1 0, respectively, but was not reduced in the presence of 6 other anti-hGARP mAbs. Suppression by clone Treg A 1 on another Th target (clone Th A2) was also measured in the presence of MHGARP8, an anti-hTGF-β 1 mAb or an isotype control. MHGARP8 (MHG-8) inhibited the in vitro suppressive activity of Treg Al in a manner similar to that of the anti-TGF-β 1 antibody, whereas the isotype control showed no effect (Figure 12). Example 8: Epitopes recognized by inhibitory anti-hGARP mAbs
Only a minority (2/35) of anti-hGARP mAbs block active TGF-β production and suppression by Tregs. This could be due to their ability to bind epitope(s) that are distinct from those bound by non-inhibitory mAbs. Therefore the regions required for binding by inhibitory and non-inhibitory mAbs were mapped.
GARP associates with pro- or latent TGF-B 1 to form disulfide-linked GARP/TGF-β 1 complexes (Figure 13 and Stockis 2009b Eur. J. Immunol. 2009. 39: 3315-3322 and Gauthy E et al). We first sought to determine whether anti-hGARP mAbs also bind GARP/TGF-Bl complexes, using co-immunoprecipitation (IP) experiments in murine BW cells transtected with hGARP and hTGFBI. Thirty-two anti-hGARP mAbs were tested: 31 mAbs of the instant invention and the commercially available Plato- 1 mAb. All mAbs efficiently immunoprecipitated GARP (top panel of Figure 14, part A, showing IPs with 12 representative mAbs). Pro-TGF-β I , as well as LAP and mature TGF-β 1 (i.e. latent TGF-131 ) were co-immunoprecipitated with 24 mAbs indicating that they bind GARP/TGF-β 1 complexes (6 mAbs shown in Figure 14, part A, middle and lower panels). In contrast, 8 mAbs (3 shown in Figure 14, part A) did not co- immunoprecipitate pro- or latent TGF-1 1 , suggesting they bind free GARP but not GARP/TGF-I31 complexes.
This was confirmed by FACS analyses of transfected 293T cells (Figure 14, part B). Untransfected 293 T cells express no G ARP and very low levels of endogenous TGF-B 1 . No latent TGF-13 is detected on their surface with an anti-LAP antibody. Transfection of GARP or TGJFBI alone induces no or low surface LAP, respectively, whereas co- transfection of GARP and TGFB1 induces high surface L AP as a result of latent TGF- B l binding and presentation by GARP (Figure 14, part B, left histograms). Three groups of anti-hGARP mAbs emerged from the analysis of transfected 293 T cells, and are classified in 3 columns in Figure 13, part B. A first group (left column) comprises the 8 mAbs that did not co-immunoprecipitate pro- or latent TGF-β 1 : they bound 293 T cells transfected with hGARP alone, but not with hGARP and hTGFBI. This confirms that these mAbs bind free GARP only, as binding to surface GARP is lost in the presence of TGF-B I (Figure 14, part B, shows 3 representative mAbs of this group). A second group comprises most other mAbs (19 mAbs, middle column of Figure 13, part B): they bound 293 T cells equally well upon transfection with hGARP alone or with hGARP and hl'Gl-Bl, indicating that they bind both free GARP and GARP/TGF-B 1 complexes (Figure 14, part B, shows 6 mAbs of this group). Interestingly, a third group of 5 mAbs bound 293 T cells transfected with hGARP and hTGFBl, but not cells transfected with hGARP alone (right column of Figure 13, part B). These mAbs bind GARP/TGF-Bl complexes but not free GARP, and include inhibitory MHGARP8 (MHG-8) and LHG- 10 (Figure 14, part B, shows 3 mAbs of this group).
From the above, we concluded that most mAbs bind free GARP only (8/32) or free GARP and GARP/TF-Bl complexes (19/32). Only five mAbs, including inhibitory MHGARP8 (MHG-8 ) and LHG- 10 but also three non-inhibitory mAbs, bind GARP/TGF-Bl complexes, but not free GARP. This pattern of recognition does not explain why only MHGARP8 and LHG- 10 are inhibitory.
We next sought to define the regions of hG ARP required for binding by the various mAbs. The vast majority of the anti-liGARP mAbs do not cross-react on mouse GARP (mGARP). Therefore plasmids were constructed encoding HA-tagged mGARP/hGARP chimeras (Figure 15, part A, left panel) and transfected into 293T cells, with or without hTFGB 1 depending on the binding requirements determined above. All chimeras were expressed at similar levels on the surface of 293 T cells, as evidenced by staining with an anti-HA mAb (Figure 15, part A, histograms on the right). Binding patterns to mGARP/hGARP chimeras (Figure 15, part A, 10 representative mAbs) allowed to identify the region of hGARP required for binding by each anti-hGARP mAb. This is summarized in Figure 15, part B, where mAbs are distributed in rows corresponding to various regions of hGARP: mAbs in the first row require a region comprising amino- acids 20 to 101 (hGARP2o-ioi), mAbs in the second row require hGARPmi-m, those in the third require
Figure imgf000098_0001
the fourth, hGARP265-332, and finally, a fifth group requires hGARP332..628. However, even when considering the regions required for binding, the epitope recognized by inhibitory MHGARP8 (named MHG-8 on the figure) and LHG-10 could not be distinguished from that of non-inhibitory mAbs: MHGARP8 and LHG-10, like LHG-3, - 12 and - 13, bind GARP/TGF-β complexes that contain hGARP101-141.
Sequences of mouse and human GARPioi-m differ at 14 amino-acid (aa) positions, comprising three clusters of three contiguous positions (Figure 15, part B, left panel). We constructed three mutated versions of hGARP, in each mutant, a series of three contiguous a a from region 10 1 - 14 1 were replaced by the aa found in mGARP We transfected 293 T cells with the HA-tagged mutants, alone or with hTGFBl depending on the binding requirement of the mAbs tested. Binding patterns to mutants revealed three types of mAbs (Figure 15, part B, right panel), which required amino-acids hGARPiii-i ij, hGARP126-127, or hGARPi ¾--i ··) for binding, respectively. Six mAbs, including MHGARP8 (named MHG-8 on the figure) and LHG- 10, required hGARP, 139 (Figure 13B). Whereas four of six can bind free hGARP, MHG-8 and LHG- 10 are the only mAbs that require hGARPi in the context of GARP/TGF-β 1 complexes.
From the above, we concluded that inhibition of TGF-13 production by M HGARP8 and LHG- 10 is associated with the ability to bind an epitope that is distinct from those recognized by all other, non-inhibitory, anti-hGARP mAbs.
Example 9: Inhibition of human Tregs function by anti-hGARP in vivo
We next sought to evaluate whether inhibitory anti-hGARP mAbs could inhibit human T'reg function in vivo. We used a model of xenogeneic graft-versus-host disease (GVHD) induced by transfer of human peripheral blood mononuclear cells (PBMCs) into immuno-compt omised
Figure imgf000099_0001
(NSG) mice. NSG mice have defective cytokine signaling and lack functional T, B and NK cells, allowing very efficient engraftment of human T cells upon i. v. injection of PBMCs. Thirty to forty days after PBMC transfer, recipient mice dev elop xenogeneic GVHD, due to the activ ity of human cytotoxic T lymphocytes against murine tissues ( Shultz, Nat Rev Immunol. 20 1 2 Nov; 12( 1 1 ):786-98 ). In this model, co-transfer of human Tregs w ith human PBMCs attenuates GVHD (Harmon et al. Transfusion. 20 14 Feb ; 54( 2 ) : 353 -63 ), prov iding a model to test the inhibitory activity of anti-hGARP mAbs on human Tregs in vivo. We transferred human PBMCs (3xl0 mouse) with or without autologous Tregs (1.5xl06/mouse) in N SG mice (Figure 16, part A). As a source of human Tregs, we used blood CD4+CD25hlCD127!o cells that had been shortly amplified in vitro, as described above. In addition, mice were injected with MHGARP8 (named MHG-8 on the figure), anti-TGF-B I , an isotype control or PBS, one day before the graft and weekly thereafter. Objective signs of GVHD were monitored bi-weekly, to establish a disease score based on weight loss, reduced mobility, anemia or icterus, and hair loss. We performed four independent experiments (Figure 16, part B), and detailed results are shown for one (Figure 16, part C). Depending on the experiment, onset of disease (mean GVHD score >1) was observed 28 to 41 days after PBMC transfer in groups of mice that received no mAb or an isotype control. Co-transfer of Tregs delayed disease, which occurred 46 to 72 days after transfer, indicating that human Tregs were able to suppress human T cell responses against xenogeneic antigens. Administration of MHGARP8 to mice transferred with PBMCs and Tregs abrogated the protective effect of Tregs: disease occurred as early as in mice receiving PBMCs only (28 to 44 days after transfer). Inhibition of Treg suppressive function by MHGARP8 was similar to that observed with a neutralizing anti-TGF-B 1 antibody. An isotype control had no effect.
Altogether, this shows that MHGARP8 inhibits the immune-suppressive function of human Tregs in vivo. We verified that MHGARP-8 did not aggravate GVHD in mice grafted with PBMCs alone, thus that its effect depended on the co-injection of Tregs (Fig. 17). We also examined whether abrogation of Treg protection by MHGARP-8 depended on its ability to block TGF-β production. MHGARP-8 was compared to LHG-10.6, which also blocks TGF-β production by Tregs, and to LHG-3, which does not. Antibody LHG- 10.6 is a variant of LHG-10 with increased affinity for GARP/Ί GF-β Ι complexes that was selected by phage display from Fabs in which the heavy chain of LHG- 10 was combined to the VK library. Like MHGARP-8, LHG- 10.6 aggravated GVHD, whereas non-blocking antibody LHG-3 had no effect (Fig. 17). This suggested that MHGARP-8 and LHG-10.6 abrogate Treg protection by blocking Treg production of TGF-βΙ, and not by inducing Treg depletion. To further exclude the latter possibility, a mutated version of LHG-10.6, named LHG-10.6N297Q, was also tested. The N297Q mutation results in loss of Fc glycosylation, thus loss of Fc receptor- and C I q- binding, and consequently loss of ADCC and CDC functions. LHG- I 0.6N297Q aggravated GVHD in mice grafted with PBMCs and Tregs as potently as LHG-10.6, confirming that anti- GARP antibodies do not act by depleting Tregs (Fig. 17).
Human cytokines in the serum of mice 20 days after cell transfer were measured (Fig. 18, part A). Human IL-2 and IFNy were detected at high levels in mice grafted with PBMCs only, indicating a strong xenogeneic activation of human T cells. They were significantly reduced by the cotransfer of Tregs, confirming suppressive activity. MHGARP-8 decreased the suppression by Tregs, but had no effect in mice transferred with PBMCs alone. Finally, IL-10 levels were not increased but instead reduced in the presence of Tregs, suggesting that Tregs do not suppress through production of IL-10 in this model (Fig. 18, part A). Noteworthy, effects of MHGARP-8 on suppression of cytokine production were measured at an early time point before disease onset, to preclude confounding effects from severe inflammation that develops in some groups at later time points. This likely explains why the effects of MHGARP-8 are less pronounced on cytokine production than on disease progression.
In spleens collected 20 days after transfer, human hematopoietic cells (hCD45+) comprised mostly T lymphocytes (CD4+ and CD8+), which had considerably proliferated in mice grafted with PBMCs alone. This proliferation was inhibited by the co-transfer of Tregs, an effect that was decreased by MHGARP-8 ( Fig. 18, part B). Notably, the numbers and proportions of Tregs (hCD3+hCD4+liFOXP3+ cells or cells with a demethylated FO Pli 1 allele) were not reduced in mice treated with MHGARP- 8. On the contrary, Treg numbers were significantly increased in mice transferred with Tregs and treated with MHGARP-8 as compared to untreated mice (Fig. 18, part C). This suggests that the MHGARP-8-mediated blockade of autocrine TGF-β 1 activity favors Treg proliferation, while concomitantly inhibiting Treg function. It also supports the hypothesis that inhibitory anti-GARP mAbs do not act by depleting Tregs.
However, it could still be that inhibitory mAbs deplete a minor subpopulation of Tregs without affecting total Treg numbers. For example, this could occur if only a small proportion of Tregs expressed GARP as a result of activation in this model. /// vitro, GARP was shown to be expressed only on activated Tregs. First, the proportions and numbers of GARP+ Tregs were measured at several time points after the transfer of human PBMCs ± Tregs in NSG mice (Fig. 18, part D). Three days after transfer, approximately 50% of CD4+FOXP3+ cells expressed GARP, indicating that GARP+ cells do not represent a minor subpopulation of Tregs. Proportions of GARP+ cells decreased progressively to 10-20% of CD4+FOXP3+ by day 20, and no difference was observed between untreated mice and mice treated with the anti-GARP m.Ab LHG-10.6, which is inhibitory, or LHG-3, which is not. The numbers of GARP+ Tregs were not reduced in mice treated with either anti-GARP mAb by comparison to untreated mice. They were even increased at day 20 in mice treated with LHG-10.6 compared to all other conditions. Second, another identification procedure for activated human Tregs, as proposed by Miyara et al. was used (M. Miyara, et al. Immunity 30, 899-911 (2009)) who defined these cells as a subset of FOXP3+ Treg cells characterized by high FOXP3 levels and no CD45RA expression (CD4+FOXP3hiCD45RA- cells). A subpopulation of human FO Plhi cells appeared in mice 7 days after the transfer of human PBMCs ± Tregs. FOXP3hi cells expressed the highest levels of GAEP and most were CD45RA-. Therefore in vivo, GARP expression was maximal in the activated human CD4+FOXP3hiCD45RA- Tregs. The numbers of CD4+FOXP3 hiCD45RA- cells were not decreased in mice treated with anti-GARP mAbs by comparison to untreated mice (Fig. 18, part D), confirming that inhibitory anti-GARP mAbs did not act in this model by depleting GARP-expressing cells.
Altogether, these results indicate that the inhibitory anti-GARP mAbs are capable of inhibiting the immunosuppressive activity of human Tregs in vivo without inducing Treg depletion.
Example 10: X-ray crystal structures of the Fab-fragment generated from antibody MHGARP8 in complex with the GARP/TGF-B complex.
The Fab fragment of MHG-8 was prepared by papain digestion of MHG-8 and purified using Protein A affinity chromatography and gel filtration chromatography. The MHG- 8 Fab fragment was added to the GARP/T GFP complex to allow binding of the Fab to its antigen. The Fab-fragment purified in this way was mixed with the GARP/ TGFbeta complex and applied on a gel filtration column in 20 mM Tris/HCl pH 8.0, 50 niM NaCl. The Fab/GARP/TGF(3 complex was concentrated on a 50 kD Vivascience ultrafiltration device to a final concentration of 18 mg/mL, as determined by Nanodrop (UV).This MHG-8 Fab/GARP/TGF complex (where ΤΌΡβ is comprised of LAP and mature ΤΌΡβ) was purified and used for crystallization.
Methods
Crystallisation
The purified protein was used in crystallisation trials employing a standard screen with approximately 1,200 different conditions. Conditions initially obtained have been optimised using standard strategies, systematically varying parameters critically influencing crystallisation, such as temperature, protein concentration, drop ratio, and others. These conditions were also refined by systematically varying pH or precipitant concentrations.
Data collection and processing (Table 5)
The application of the Free Mounting System (FMS) was necessary to obtain well diffracting crystals. The crystals were coated with oil and transferred to the N2 cryo- stream at 100K. Crystals have been flash- frozen and measured at a temperature of 100 K. The X-ray diffraction data have been collected from complex crystals at the SWISS LIGHT SOURCE (SLS, Villigen, Switzerland) using cryogenic conditions. The crystals belong to space group P 2 1. Data were processed using the programs XDS and XSCALE. Table 5
X-ray source PXI/X06SA (SLS [ )
Wavelength 1.00001
Detector PILATUS 6M
Temperature [K] 100
Space group P 2i
Cell: a; b; c; [A] 103.89; 175.1 1 ; 145.81
α; β; γ; [°] 90.0; 92.2; 90.0
Resolution [A] 3.15 (3.40-3.15)
Unique reflections 83391 (16806)
Figure imgf000104_0001
where ih,i is the intensity value of the /th measurement of/?
Figure imgf000104_0002
where
Figure imgf000104_0003
is the intensity value of the /'th measurement of //
3 calculated from independent reflections
Structure modelling and refinement
The phase information necessary to determine and analyse the structure was obtained by molecular replacement. The published structures of latent TGFbeta (PDB-ID 3RJR), Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor interacting protein 1 (PDB-ID 40QT) and Fab-fragment (PDB-ID IFNS) were used as a search models. Subsequent model building and refinement was performed according to standard protocols with the software packages CCP4 and COOT. For the calculation of the free R-factor, a measure to crossvalidate the correctness of the final model, about 0.6 % of measured reflections were excluded from the refinement procedure (see Table 6). Automatically generated local NCS restraints have been applied (keyword "ncsr local" of newer REFMAC5 versions). The water model was built with the "Find waters"-algorithm of COOT by putting water molecules in peaks of the Fo-Fc map contoured at 3.0 followed by refinement with REFMAC5 and checking all waters with the validation tool of COOT . The criteria for the list of suspicious waters were: B- fact or greater 80 A2, 2Fo-Fc map less than 1.2 σ, distance to closest contact less than 2.3 A or more than 3.5 A. The suspicious water molecules and those in the ligand binding site (distance to ligand less than 10 A) were checked manually.
The occupancy of side chains, which were in negative peaks in the Fo-Fc map (contoured at -3.0 σ), were set to zero and subsequently to 0.5 if a positive peak occurred after the next refinement cycle. The Ramachandran Plot of the final model shows 79.3 % of all residues in the most favoured region, 19.4 % in the additionally allowed region, and 1.1 % in the generously allowed region. The residues Asn31(L), Ala51(L), Asn31(K), and Ala51(K) are found in the disallowed region of the Ramachandran plot (Table 5). They are either confirmed by the electron density map or could not be modelled in another sensible conformation. Statistics of the final structure and the refinement process are listed in Table 6.
T able 6
Resolution [A] 145.70-3. 15
Number of reflections (working/test) 82901 / 490
Figure imgf000106_0001
Protein 25251
VV CllC! 0 V/
β-D-maniiose 44
β-D-N-acetyl-glucose 168
Deviation from ideal geometry:
Bond lengths [A] 0.007
Bond angles [ ] 1.26
Bonded B's [A2]4 12.5
Ramachandran plot: 5
Most favoured regions [%] 79.3
Additional allowed regions [%] 19.4
Generously allowed regions [%] 1.1
Disallowed regions [%] 0.1
values as defined in REFMAC5, without sigma cut-off
2 Test-set contains 0.6% of measured reflections
3 Root mean square deviations from geometric target values
4 Calculated with MOLEMAN
5 Calculated with PROCHECK
Results The structure of the Fab:GARP/TGF-B complex was solved at a resolution of 3. 1 A.
The crystal structure of the Fab.GARP/TGF-B complex al lowed the identification of the epitope recognized by the antibody MHGARP8. The Fab-fragment binds a composite three dimensional epitope on the Fab:GARP/TGF-B complex. The interaction surface on the Fab:GARP/TGF-B complex is formed by several continuous and discontinuous sequences from both hGARP (Tables 7a and 7b respectively) and TGF-B (Table 7c), showing interactions between TGF residues and MHG-8 heavy chain residues. Table 7a: Interactions between GARP residues (left side) and MHG-8 heavy chain residues (right side)
Figure imgf000107_0001
Table 7b: Interactions between GARP residues (left side) and MHG-8 light chain residues (right side)
Figure imgf000108_0001
Table 7c: Interactions between TGF[3 residues (left side) and MHG-8 heavy chain residues (right side)
Figure imgf000109_0001
Example 1 1 : Impact of mutations in GARP or TGF-β 1 on the binding and activity of inhibitory anti-GARP antibodies MHG-8 and LHG-10.
Impact of mutations in GARP or TGF-B l. on the binding of inhibitory anti-GARP antibodies MHG-8 and LHG-10 used in saturating conditions.
Resolution of the crystal structure of MHG-8 Fab/GARP/TGF-B 1 complexes and analysis with the CONTACT software allowed the identification of 22 amino-acids in GARP, 8 amino-acids in LAP and 6 amino-acids in mature TGF-Bl that are located less than 5 A away from an amino-acid of the light or heavy chain of the MHG-8 Fab (Tables 7a, b and c, and Table 8). Directed mutagenesis was used to construct plasm ids encoding HA-tagged forms of GARP or TGF-Bl that are mutated at one, two, or three of these 36 positions (all mutations constructed are indicated in Table 8). 293 T cells were then transfected with these plasmids and the ability of anti-GARP, anti-LAP or anti-HA antibodies to bind to the GARP/TGF-Bl complexes containing mutated forms of GARP or TGF-Bl was determined by flow cytometry. Antibodies were used at a saturating concentration of 5 ug/ml for labeling. Binding of each antibody to a given mutant GARP/TGF-Bl complex was compared to their binding to wild type (WT) complexes, by determining an Im/Wt value (i.e. intensity of binding to mutant by comparison to WT). This value was calculated as follows: Im/„t of antibody X = I Geom on mutant - Geom on control] / [Geom on WT - Geom on control |
where Geom corresponds to the geometric mean of the fluorescence intensity measured by FACS on 293 T cells transfected with empty plasmid (control) o plasmids encoding the mutant or WT forms of G ARP/TGF-B 1 complexes.
The level o residual binding of anti-GARP or anti-LAP antibodies to each mutant was then calculated by comparison to WT, taking into account the expression levels of mutant and WT forms as measured with anti-HA antibodies. Residual binding was calculated as follows: Residual binding by an anti-GARP or anti-LAP antibody =
[Im/wt with anti-GARP or anti-LAP antibody] / | Im/»t with anti-HA antibody]
Results obtained on all mutants are detailed in Figure 19, parts A-D for binding by inhibitory anti-GARP antibodies MHG-8 and LHG-10, non-inhibitory anti-GARP antibody MHG-6, and anti-LAP antibody, respectively. They are also summarized in Table 8 for MHG-8 and LHG-10. Table 8: Effects of GAEP and TGF|] 1 mutations on the binding and inhibitor}' activity of mAbs MHG-8 and LHG-10
Figure imgf000111_0001
Figure imgf000112_0001
Amino-acids located at less than 5 angstrom from an amino-acid of MHG-8 as determined with the CONTACT software
+ : < 50% residual binding on mutant by comparison to WT; - : > 50% residual binding on mutant by comparison to WT;
+/- : residual binding > 50%> but error bar (sdt deviation) crosses the 50%) threshold + : ratio of EC 50 (mutant vs WT) > 2, - : ratio of EC50 (mutant vs WT) < 2; NE : non eval uable; nt: not tested
+ : residual inhibitory activity < 21 %; not: not tested; ? : not conclusive, should be re-tested
Figure 19, part A, demonstrates that binding by MHG-8 was lost {i.e. residual binding < 50%) on the following GARP mutants:
triple mutation Y 137H/S 138G/G 1 9N (2% residual binding), confirming previous observations [Cuende et al., 2015];
single mutation G 139N (2%> residual binding), but not single mutations Y137H and S 138G, indicating a more prominent role of GARP Gly 1 39 than Tyr l 37 and
Serl 38 in binding by MHG-8; double mutation L 140K/E 142L (7% residual binding);
single mutations R 143 A and R 143Y (1% residual binding);
double mutations R 1 63 A/T 165A (36% residual binding) and R I 63 E/T I 65A (4% residual binding);
- single mutation R 163E (19% residual binding), but not single mutation T165A, indicating a more prominent role of Arg 1 63 than Thr 1 65 for binding by MHG-8. Altogether, of the 22 a a in GARP that are in contact with the MHG-8 Fab as determined by analysis of the crystal structure, only 5 a a (Gly 139, Leul40/Glul42, Arg 143 and Arg 1 63 ) appear to be required for binding to the MHG-8 niAb.
In addition. Figure 19, part A demonstrates that only one mutation in TGF-Bl results in loss of binding by MHG-8. This mutation corresponds to K338E (25% residual binding). Thus, of the 8 a a from LAP and 6 a a from mature TGF-β 1 that are in contact with MHG-8 Fab in the crystal, only one aa in mature TGF-Bl (Lys338) is required for binding to the MHG-8 mAb.
Figure 19, part B shows residual binding by LHG- 10 on GARP mutants. The results can be summarized as follows:
- triple mutation Y 137H/S 138G/G 139N induces loss of binding by LHG- 10 (6% residual binding), confirming previous observations [Cuende et al., 20 1 5] ; single mutation Y 1 3711 induces a partial loss of binding (62% residual binding, but standard deviation of the mean value crosses the 50% threshold), whereas single mutations G 139 and S 138G do not affect binding. The mode of binding of LHG- 10 to GARP is thus different from that of MHG-8 (see above);
- double mutation L140K/E142L does not induce loss of binding to LHG- 10, in contrast to what was observed for MHG-8, confirming that the mode of binding of LHG- 10 to G ARP is different from that of MHG-8;
single mutation R I 43Y only induces a partial loss of binding (68% residual binding), whereas mutation R 143 A does not. Thus, a a Arg 143 appears more important for binding by MHG-8 than binding by LHG- 10;
single mutation T162D induces loss of binding by LHG- 1 0 (49% residual binding), whereas it had no effect on binding by MHG-8; single mutation R163E induces loss of binding by LHG- 10 (48% residual binding).
Altogether, of the 22 aa in GARP that are in contact with the MHG-8 Fab as determined by analysis of the crystal structure, only two aa (Thrl62 and Arg 163 ) appear to be required for binding by the LHG-10 mAb. In addition, two other aa (Tyrl 37 and Arg 143 ) appear to also play a role, as mutations of the aa induce partial loss of binding by LHG- 10. Of the four aa important for binding by LHG- 10, two are also required for binding by MHG-8 (Arg 143 and Arg 163 ), whereas two are nique to LHG- 10 (Tyrl37 and Thr 62).
Figure 19, part B, also shows that one mutation in mature TGF-β 1 ( 338E, 15% residual binding) induces loss of binding to LHG-10. This mutation also induced loss of binding to MHG-8. One other mutation in mature TGF-I 1 (Y336A, 56% residual binding) induced partial loss of binding to LHG-10, whereas it did not affect binding to MHG-8.
As expected, none of the mutations tested induced loss of binding to MHG-6, a non- inhibitory anti-GARP antibody that binds GARP/TGF-Bl complexes on an epitope distant from that bound by MHG-8 and LHG- 10 (Figure 19, part C). Similarly, none of the mutations induced loss of binding to the anti-LAP antibody (Figure 19, part D). Impact of mutations in GARP or TGF-fil on the avidity of inhibitory anti-GARP antibodies M HG-8 and LHG-10 for GARP/TGF-Bl complexes.
Mutations that do not induce loss of binding by MHG-8 or LHG- 10 (> 50% residual binding) could nevertheless induce a reduced avidity of the antibodies for the mutated GARP/TGF-β I complexes by comparison to WT. The avidity of each antibody on the WT and on the various mutated forms of GARP/TGF-Bl complexes was determined by performing FACS analyses of 293T ceils transfected as described above, using 5 -to- 5 serial dilutions of antibodies for labeling (final concentrations of 5, 1, 0.2, 0.04, 0.008 and 0.0016 μg/ml). Intensities of staining at each concentration o antibody relative to the maximal intensity measured at 5 Lig/ml were determined as follows:
Relative staining intensity = [Geom with X jig/ml of antibody - Geom in the absence of antibody] / [Geom with 5 jig/ml of antibody - Geom in the absence of antibody] The relative staining intensities were plotted according to the concentration of antibody used for staining, and a non-linear regression analysis was used with the Prism software to determine an EC50 value for binding of the antibody to the WT and to each of the various mutant GARP/TGF-β I complexes. If the ratio between the EC50 measured on the mutant and the EC50 measured on the WT was > 2, the mutation was considered to induce a reduced avidity for binding by the antibody. The ratio of EC50 (mutant vs WT) for MHG-8 and LHG-10 are indicated below each mutation on Figure 19, parts A and B, respectively. The data from this experiment is also summarized in Table 8.
The avidity of the antibodies for mutations that induce a complete loss of binding (< 10% residual binding) cannot be evaluated (NE = non evaluable in Figure 19, parts A and B).
Further, most mutations that induce incomplete loss of binding (10 to 50% residual binding) also induce reduced avidity. This is the case for mutations R 163 E in GARP and K338E in TGF-Bl for binding by MHG-8, and for mutations T162D and R163E in GARP for binding by LHG- 10. Unexpectedly, a few mutations that induced partial loss of binding at 5 .ug/ml did not appear to induce reduced avidity. This was the case for mutations Y137H and R143Y in GARP and mutations Y336A and K338E in TGF-Bl for binding by LHG-10. However, in these apparently paradoxical cases, the concentration of 5 μ«/'ηι1 of LHG- 10 used by default as the maximum concentration did not yield a saturated signal. This could induce an error in the calculated EC50, explaining the apparent discrepancy.
Interestingly, three mutations that did not induce loss of binding (> 50% residual binding) when MHG-8 was used at 5 Lig/ml, nevertheless reduced the avidity of MHG-8 for the GARP/TGF-B 1 complexes. These mutations correspond to T 162D and Rl 66/H 167E in GARP, and Y336 A in TGF-B 1. Mutations T 162D in GARP and Y336 A in TGF-B 1 induced loss of binding by LHG- 10, indicating that Thr 162 of GARP and Tyr336 of TGF-B 1 are important amino acids for the binding of both MHG-8 and LHG- 10, although the effect of mutations at these positions are not completely identical. Impact of mutations in GARP or TGF-Bl on the inhibitory activity of anti-GARP antibodies MHG-8 and LHG-10.
Mutations that neither induce loss of binding nor reduce the avidity of MHG-8 or LHG- 10 for G ARP/TGF-β I complexes could nevertheless result in a decreased ability of the antibodies to inhibit active TGF-Bl production from GARP/TGF-B 1 complexes. This would indicate the existence of points of contact between GARP/TGF-B 1 complexes and M HG-8 and/or LHG-10 that are important for the inhibitory activity of the antibodies but are not required for their binding. In order to examine this possibility, functional assays were developed to measure active TGF-Bl production from wild type or mutant GARP/TGF-B I complexes in transfected 293 T cells, in the presence or absence of ant i-G ARP antibodies.
To measure the capacity of MHG-8 and LHG- 10 to inhibit active TGF-B I production from GARP/TGF-B 1 complexes containing mutant forms of GARP, a clone of 293 T cells stably transfected with integrin 136, which pairs with the endogenously expressed integrin aV to form a well-known activator of latent TGF-B 1 , was used. This clone, named 293T+ITGB6, was transiently co-transfected with mutant forms of GARP, with wild type TGF-B 1 and with a CAGA-Luc reporter plasmid in which luciferase expression is driven by a TGF-B l responsive promoter.
To measure the capacity of MHG-8 and LHG- 10 to inhibit active TGF-B 1 production from GARP/TGF-B 1 complexes containing mutant forms of TGF-B l , a clone of 293 T cells stably transfected with integrin B6 and GARP was used. This clone, named 293T+ITGB6+GARP, was transiently co-transfected with mutant forms of TGF-B 1 and with the CAGA-Luc plasmid.
Transiently transfected cells (293T + ITGB6 or 293T+ITGB6 ; GARP) were incubated during 24 hours with inhibitory anti-GARP antibodies MHG-8 or LHG-10, or with control antibodies corresponding to a neutralizing anti-TGF-B 1 antibody (positive control ), or the non-inhibitory anti-GARP antibody LHG- 14 (negative control ). All antibodies were used at 20 ng/ml. Cells were then lysed and incubated with a luciferase substrate and the luminescent signal was measured in a luminometer. To compare various mutants tested in different experiments, the inhibitory activity of antibodies were experessed as follows:
Residual inhibitory activity ( %) = 100 x | Inhibition by antibody X on the mutant complex] / [Inhibition by antibody X on the WT complex]
where Inhibition by antibody X = 1 - [luminescent signal with antibody X] / [luminescent signal with the control, non inhibitor}' anti-GARP antibody LHG-14]
Results obtained are detailed in Figure 20, parts A-C for MHG-8, LHG- 10 and anti- T'GF-β I , respectively, and summarized in Table 8.
As expected, mutations that induce loss of binding by MHG-8 or LHG- 10 (underlined in Figure 20, parts A and B) induce a complete or almost complete loss of their inhibitor}'" activity (residual inhibitory activity <21%). Mutations that reduce the avidity of the antibodies without inducing complete loss of binding (indicated in italics in Figure 20, parts A and B) do not appear to affect the inhibitory activity of the antibodies when used at 20 iig/ml in this assay.
Interestingly, a few mutations that did not induce loss of binding nor reduced the avidity of the antibodies induced a severe loss of inhibitory activity. These mutations are highlighted by a box in Figure 20, parts A and B. They comprise mutations G1 18L/G1 19L and Y137H of GARP, on which MHG-8 only exerts 1 1% and 20% residual inhibitory activity, respectively. These mutations also appear to at least partially affect the inhibitory activity of LHG- 10. Further, mutation R58A does not affect binding by antibody LHG-10, but completely abolishes its inhibitory activity. As expected, none of the mutations tested affect the inhibitory activity of the anti-TGF- 131 antibody, used here as a positive control.
Materials and Methods
Mice
Mice (DBA/2, Balb/c, and NOD.Cg-Prkdcscid I12rgtm I Wjl/SzJ or NSG from The Jacskon Laboratory) were bred at the animal facility of the Universite Catholique de Louvain, Belgium. Handling of mice and experimental procedures were conducted in accordance with national and institutional guidelines for animal care.
Cells and transections
Pl .HTR cells, a highly transferable variant of the P815 mastocytoma derived from DBA/2 mice, were electroporated with a plasmid encoding the full-length human GARP and selected in puromycin (1.6 ng/ml) under limiting dilution conditions. Two clones expressing high surface hGARP (Pl .HTR+hGARP) were isolated and used to immunize H-2d mice. A stable clone of murine BW5 147.C2 cells expressing high levels of human GARP (BW5147+hGARP) was derived as described (E. Gauthyet al, PLoS One 8, e761 86 (2013)). This clone was electroporated with a plasmid encoding full-length human TGF-b 1 , and selected in neomycin (3 mg/ml) under limiting dilution conditions. A subclone expressing high levels of surface hGARP/h I GF-β 1 complexes (BW5 147+hGAR ; hTGFB 1 ) was isolated and used to immunize llamas. Human Treg and Th clones were derived and cultured as previously described (J. Stockis, et al. Eur. J. Immunol. 39, 869-882 (2009).). Total human PBMCs were purified from the blood of hemochromatosis donors by centrifugal ion on a Lymphoprep® gradient. Human polyclonal Tregs were obtained by sorting CD4+CD25+CD1271o cells by FACS from total PBMCs, followed by / / vitro stimulation with anti-CD3/CD28 coated beads in the presence of IL-2 during 12-13 days, as described (E. Gauthyet al. PLoS One 8, e76186 (2013).). 293T cells were transiently transfected with hGARP- and hTGF-β 1 -encoding plasmids using the TransIT-LTl transfection Reagent (Minis Bio).
Generation o/MHG mAhs
DBA 2 or Balb/c mice were immunized with live Pl .HTR+hGARP cells, following a previously described injection scheme (M. M. Lemaire, et al. J. Immunol. Methods, (201 1)). Lymphocytes from mice with high titers of anti-hGARP antibodies, as determined by FACS, were fused to SP2/neo cells in the presence of polyethylene glycol. Hybridomas were selected in HAT medium and cloned under limiting dilution conditions. Supernatants of hybridoma clones were screened by FACS for the presence of antibodies binding to BW5147+liGARP cells. Fourteen positive clones were selected, further subcloned to ensure clonal ity, and amplified for large scale-production and purification of 14 new anti-hGARP mAbs (MHG- 1 to - 14).
Generation of LHG mAbs
Immunizations of llamas, harvesting of peripheral blood lymphocytes (PBLs), RNA preparation and amplification of antibody fragments were performed as described (C. Basilico, et al . J. Clin. Invest. 124, 3 172-3186 (2014)). Briefly, four llamas were injected six times at weekly intervals with 10 ' BW5147+hGARP+hTGFB l cells and Freund' s incomplete adjuvant in two regions of the neck muscles located a few centimeters apart. Another four llamas were injected four times biweekly with a mix of plasmids containing hGARP cDNA and hTGFB 1 cD A, respectively. Blood samples (10 ml) were collected to monitor IgGl responses against hGARP/TGF-βΙ complexes by EL IS A, using immobilized recombinant GARP/TGF-β 1 complexes (produced in HEK-293E cells co-transfected with hTGFB 1 and hGARP truncated from the transmembrane-coding region) for capture, followed by a mouse anti-llama IgGl antibody (clone 27E10) and a HRP-conjugated donkey anti-mouse antibody (Jackson) for detection. Three-to-four days after the last immunization, 400 ml of blood were collected from responding llamas, PBLs were isolated on a Ficoll-Paque gradient and total RNA was extracted as described (P. Chomczynski, et al. Anal. Biochem. 162, 156- 159 (1987)). On average, 450 Lig of RNA were obtained and used for random cDNA synthesis followed by PGR amplification of the immunoglobulin heavy and light chain variable regions (VH, Υλ and VK). TWO independent phage mid libraries, coding for VH/νλ and VH/VK Fabs, respectively, were constructed as previously described (C. Basilico, et al. J. Clin. Invest. 124, 3172-3186 (2014).) to obtain a diversity of 1-7* 1Q8 Fabs in each library. Phages expressing Fabs were produced and selected according to standard protocols. Briefly, 2 to 3 rounds of phage selections were performed by binding on immobilized recombinant GARP/TGF-β 1 , washing and elution with trypsin. In some instances, counter selections with soluble hGARP (hGARP 1-628 fused to a TEV-3xStrepTag produced in 293E cells) and soluble latent TGF-β 1 were used to enrich for Fabs binding hGARP/TGF-β 1 complexes only. Individual colonies were isolated and periplasmic fractions containing soluble Fabs were produced by 1PTG induction. Fabs in periplasmic fractions were then screened by EL IS A. for binding to immobilized hGARP/TGF-β I VH and VL regions of Fab clones binding to hG.ARP/TGF-β Ι complexes were sequenced. Fab clones were divided into 1 7 families, based on similarities in the sequences coding for the VH CDR3 region. VH and VL sequences from one representative clone of each family were subcloned in a full human IgGl backbone, and the resulting plasmids were transfected into HEK-293E cells to produce and purify 1 7 new anti-hGARP mAbs (LHG-1 to - 1 7).
Analysis of FOXP3H methylation
Proportions of cells w ith a demethylated ΙΌ 3Ϊ 1 in human PBMCs, in human polyclonal Treg populations or in splenocytes from NSG mice grafted with human cells were measured by methyl-specific qPCR as described ( 1. .1. de Vries, et al. Clin. Cancer Res. 17, 841-848 (201 1)), using the following primers (sense, antisense and Taqman probe, 5 '-3 ', with underlined nucleotides corresponding to LNA® modified bases): total FOXP3il alleles: AAACC'l A T A AAAACAAAACAAC ( SEQ ID NO: 56) / GG AGG A AG AG A AG AGGGT A (SEQ I D NO: 57)/
CCTATAAAATAAAATATCTACCCTC (SEQ ID NO: 58); demethylated FOXP3il alleles: TCTACCCTCTTCTCTTCCTCCA (SEQ ID NO: 59)/ GATTTTTTTGTTATTGATGTTATGGT (SEQ ID NO: 60)/
A A A C C C A A C A C A T C C A A C C A ( SEQ ID NO: 61). Assay to measure active TGF-βΙ production by human Treg cells
A human Treg clone (10° cells/ml ) was stimulated in serum-free medium with coated anti-CD3 (Orthoclone O I 3; Janssen-Cilag, 1 g/ml) and soluble anti-CD28 (BD Biosciences; I ng-'ml ), in the presence or absence of 10 ug/ml of an anti-hGARP mAb (clones tested: MHG-1 to -14; LHG-1 to -17; Plato- 1 from Enzo Life Sciences; 272G6 and 50G10 from Synaptic Systems; 7B 1 1 from BioLegend) or of an anti-hTGF- β antibody (clone 1 D 1 I , R&D systems). Cells were lysed after 24 hours and submitted to SDS-PAGE under reducing conditions. Gels were blotted on nitrocellulose membranes with the iBlot system (Life Technologies). After blocking, membranes were incubated with primary antibodies directed against phosphorylated SMAD2 ( pSMAD2, Cel l Signaling Technologies) or β-ACTIN (SIGMA), then with secondary HRP coupled antibodies and revealed with an ECL substrate (TherraoFisher Scientific). The presence of pSMAD2 indicates production of active TGF-β Ι by the stimulated Treg clone. ECL signals were quantified by measuring the density of the 55 kDa pSMAD2 and 40 kDa β- ACTIN bands on autoradiographs, using the Image J software.
Flow cytometry
Intact or permeabilized cells were labeled according to standard protocols, using combinations of the following primary and/or secondary reagents as indicated in the figures. Primary antibodies: biotinylated MHG- 1 to 14; LHG-1 to - 1 7; anti-hGARP clone Plato 1 (Enzo Life Sciences); antihCD45-PerCP, anti-hCD3~FITC or anti-hCD3- APC, anti-hCD4-FITC or anti-hCD4-APC, antihCD45RA-PE-Cv7 (Biolegend); anti- hCD8a-APC-H7, anti-CD25-PE-Cy7, anti-hCD I 27-PE (BD Biosciences); anti- hFOXP3-PE or anti-hFOXP3-APC (eBiosciences); anti-liLAP-APC (R&D Systems); anti-HA (Eurogentec). Secondary antibodies or reagents: anti-hlgG l -biotine (Jackson ImmunoResearch); anti-mlgG 1 -AF647, anti-mIgG2b-AF647, LIVE/DEAD Fixable Near-IR Dead cell stain kit (Life Technologies); Streptavidine-PE (BD Biosciences). Labeled cells were analyzed on a LSR Fortessa cytometer or sorted on a F AC SARI A III (both from BD Biosciences), and results were computed with the FlowJo Software (Treestar). In vitro suppression assays
2x104 Th cells were seeded alone or with the indicated numbers of Tregs, and stimulated with coated anti-CD3 (Orthoclone OKT3, Janssen-Cilag, 1 .ug/ml) and soluble anti-CD28 (BDBiosciences, 1 μg/ml), in the presence or absence of 10 μ«/'ηι1 of an anti-hGARP mAb (MUG or LUG), an anti-TGF-b antibody (clone 1 D1 1, R&D Systems) or an isotype control (mlgGl clone 1 1 7 1 1 , R&D Systems), [methy!- 3H]Thymidine (0,5 mCi/well) was added during the last 16 hours of a 4 day-culture.
Xenogeneic graft-versus-host disease in NSG mice
NSG mice were irradiated (1.5 Gy) one day before tail vein injections of human PBMCs (3xl06 per mouse) alone, or mixed with autologous polyclonal Tregs (1.5xl06 per mouse). One day before graft and weekly thereafter, mice received i.p. injections of PBS or 400 tig of MHG-8 (mlgGl), an anti-TGF-bl antibody (mlgGl clone 13A1/A26) or an isotype control (mlgGl anti-TNP clone B840 1 H5.M). Mice were monitored biweekly for the development of GVH D. A global disease score was established by adding up scores attributed in the presence of the following symptoms: weight loss (1 if >10%; 2 if >20%); anemia or icterus (1 if white or yellow ears; 2 if white or yellow ears and tail); humped posture (1); reduced activity (1 if limited activity; 2 if no activity); hair loss (1). Mice were euthanized when reaching a global score >6. Death corresponds to a maximum score of 8. Cytokine concentrations in sera
Concentrations of human 1 L-2, IL-10, and IFNg in mouse serum were determined using a Bio-Plex Pro Human Cytokine 17-plex Assay according to the manufacturer's recommendations (Bio-Rad Laboratories). Limits of detection in this assay were: 0.12 pg/'ml for IL-2; 1.56 pg/'ml for IFNy; 2.48 pg/ml for IL-10.
Equivalents
The disclosure may be embodied in other spec i lie forms without departing from the spirit or essential characteristics thereof. The foregoing embodiments are therefore to be considered in all respects illustrative rather than limiting of the disclosure. Scope of the disclosure is thus indicated by the appended claims rather than by the foregoing description, and all changes that come within the meaning and range of equi valency of the claims are therefore intended to be embraced herein.

Claims

1. An antibody binding to an epitope of a complex formed by human GARP and TGF-B, said epitope comprising at least one of the residues 137, 138, or 139 of GARP (SEQ ID NO: 1) and at least one residue of TGF-B (SEQ ID NO: 53).
2. An antibody binding to an epitope of a complex formed by human GARP and
TGF-B, according to claim 1, said epitope comprising at least one of the residues 137, 138, or 139 of GARP (SEQ ID NO: 1 ) and at least one residue from the Latency associated peptide (LAP) of TGF-B (SEQ ID NO: 54) and at least one residue from mature TGF-B (SEQ ID NO: 55).
3. An antibody binding to an epitope of a complex formed by human GARP and
TGF-β, according to claim 1, said epitope comprising residues 137, 1 38 and 139 of GARP (SEQ ID NO: 1 ) and at least one residue of TGF-β (SEQ ID NO: 53).
4. An antibody binding to an epitope of a complex formed by human GARP and TGF-β, according to claim 1, said epitope comprising residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide (LAP) of TGF-B (SEQ ID NO: 54) and at least one residue from mature TGF-B (SEQ ID NO: 55).
5. The antibody binding to an epitope of a complex formed by human GARP and
TGF-B according to claim 1 , said epitope comprising at least one of residues 1 37, 1 38 or 139 of GARP ( SEQ ID NO: 1) and at least one residue from the
Latency associated peptide (LAP) selected from the group of residues 58, 100, 146, 269, 270, 271 , 272, and 273 of TGF-B (SEQ ID NO: 53) and at least one residue from mature TGF-B ( SEQ ID NO: 55).
6. The antibody binding to an epitope of a complex formed by human GARP and TGF-B according to claim 1 , said epitope comprising at least one of residues
137, 138 or 139 of GARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide (LAP) of TGF-B (SEQ ID NO: 54) and at least one residue from mature TGF-13 selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF β (SEQ ID NO: 53).
7. The antibody binding to an epitope of a complex formed by human GARP and TGF-β according to claim 1, said epitope comprising at least one of residues 137, 138 or 139 of GARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide (LAP) selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, and 273 of TGF-13 ( SEQ ID NO: 53 ) and at least one residue from mature T GF-13 selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF 13 (SEQ ID NO: 53).
8. The antibody binding to an epitope of a complex formed by human GARP and TGF-13 according to claim 1 , said epitope comprising residues 137, 1 38 and 139 of GARP ( SEQ ID NO: 1) and at least one residue from the Latency associated peptide ( LAP) selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, and 273 of TGF-β ( SEQ I D NO: 53 ) and at least one residue from mature TGF-13 selected from the group of residues 284, 336, 37, 338, 34 1 , and 345 of TGF β (SEQ ID NO: 53).
9. The antibody binding to an epitope of a complex formed by human GARP and TGF-β according to claim 1, said epitope comprising at least one of residues 1 37, 1 38 or 1 39 of G ARP (SEQ ID NO: 1) and at least one residue from TGF-B selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, 273, 284, 336, 337, 338, 341, and 345 of TGF-β (SEQ ID NO: 53).
10. The antibody binding to an epitope of a complex formed by human GARP and TGF-13 according to claim 1 , said epitope comprising residues 137, 1 38 and 1 39 of GARP ( SEQ ID NO: 1) and at least one residue selected from the group of residues I 13, I 14, I 16, 1 1 7, I 1 8, 1 19, 140, 142, 143, 144, 145, 146, 1 62, 1 63, 165, 166, 167, 170 and 1 89 of GARP ( SEQ ID NO: 1) and at least one residue from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least one residue from mature TGF-β ( SEQ ID NO: 55).
11. The antibody binding to an epitope of a complex formed by human GARP and TGF-β according to claim 1, said epitope comprising residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least one residue selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide (L AP) selected from the group of residues 58, 100, 146, 269, 270, 271, 272, and 273 of TGF-I3 (SEQ ID NO: 53) and at least one residue from mature TGF-13 (SEQ ID NO: 55).
12. The antibody binding to an epitope of a complex formed by human GARP and TGF-β according to claim 1, said epitope comprising residues 137, 138 and 139 of GARP (SEQ ID NO: 1) and at least one residue selected from the group of residues 1 13, 1 14, 1 16, 1 17, 1 18, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 170 and 189 of GARP (SEQ ID NO: 1) and at least one residue from the Latency associated peptide (LAP) (SEQ ID NO: 54) and at least one residue from mature TGF-β selected from the group of residues 284, 336, 337, 338, 341, and 345 of TGF β (SEQ ID NO: 53).
13. The antibody binding to an epitope of a complex formed by human GARP and TGF-β according to claim 1, said epitope comprising residues 1 37, 138 and 139 of GARP ( SEQ ID NO: 1) and at least one residue selected from the group of residues I 1 3, I 14, I 16, 1 17, I 1 8, 1 19, 140, 142, 143, 144, 145, 146, 162, 163, 165, 166, 167, 1 70 and 1 89 of GARP (SEQ ID NO: 1) and at least one amino acid from the Latency associated peptide ( LAP) selected from the group of residues 58, 100, 146, 269, 270, 27 1 , 272, and 273 of TGF-β (SEQ ID NO: 53) and at least one residue from mature TGF-13 selected from the group of residues 284, 336, 337, 338, 34 1 , and 345 of TGF 13 (SEQ ID NO: 53 ).
14. The antibody of claim 1 , wherein the antibody is selected from the group consisting of a whole antibody, a humanized antibody, a single chain antibody, a dimeric single chain antibody, a Fv, a Fab, a F(ab)'2, a defucosylated antibody, a bi-specific antibody, a diabody, a triabody, a tetrabody; or an antibody fragment selected from the group consisting of a unibody, a domain
12.3 antibody, and a nanobody; or an antibody mimetic selected from the group consisting of an affibody, an affilin, an affitin, an adnectin, an at rimer, an evasin, a DARPin, an anticalin, an avimer, a fynomer, a versabody and a duocalin.
15. The antibody of claim 1, wherein the antibody inhibits TGF-B signaling.
16. The antibody of claim 1, wherein the antibody prevents the release of active TGF-B from GARP/TGF-B.
17. A method for inhibiting TGF-B signaling comprising administering an antibody according to claim 1 .
18. A method for treating a TGF-B related disorder in a subject in need thereof, compri ing administering to the subject a therapeutically effective amount of the antibody according to claim 1 .
19. The method according to claim 19, wherein the TGF-B related disorder is selected from the group consisting of inflammatory diseases, chronic infection, cancer, fibrosis, cardiovascular diseases, cerebrovascular disease (e.g. ischemic stroke), and neurodegenerative diseases.
20. A method for treating cancer in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the antibody according to claim 1 in combination with another treatment for cancer or another immunotherapeutic agent.
21. The method according to claim 21, wherein the i mmunotherapeutic agent is a tumor vaccine or an i m m u no st i m u 1 a t ory antibody.
22. The method according to claim 2 1 , wherein the method reduces immunosuppression in the tumor environment.
23. A method for boosting the immune system in a subject in need thereof, compri ing administering to the subject a therapeutically effective amount of the antibody according to claim 1 in combination with another treatment for cancer or another immunotherapeutic agent.
24. A method for inhibiting the immune suppressive function of human Tregs in a subject in need thereof, comprising administering to the subject a therapeutically effective amount of the antibody according to claim 1 in combination with another treatment for cancer or another immunotherapeutic agent.
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WO2018206790A1 (en) 2017-05-11 2018-11-15 Argenx Bvba GARP-TGF-β ANTIBODIES
US10550198B2 (en) 2015-09-24 2020-02-04 Daiichi Sankyo Company, Limited Anti-garp antibody
WO2020165457A1 (en) * 2019-02-15 2020-08-20 Consejo Superior De Investigaciones Cientificas (Csic) Cortistatin or an analogue thereof as a pharmaceutically active agent in latent form
WO2021079958A1 (en) 2019-10-25 2021-04-29 第一三共株式会社 Combination of anti-garp antibody and immunoregulator
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Citations (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4816567A (en) 1983-04-08 1989-03-28 Genentech, Inc. Recombinant immunoglobin preparations
EP0404097A2 (en) 1989-06-22 1990-12-27 BEHRINGWERKE Aktiengesellschaft Bispecific and oligospecific, mono- and oligovalent receptors, production and applications thereof
WO1993011161A1 (en) 1991-11-25 1993-06-10 Enzon, Inc. Multivalent antigen-binding proteins
US5892019A (en) 1987-07-15 1999-04-06 The United States Of America, As Represented By The Department Of Health And Human Services Production of a single-gene-encoded immunoglobulin
US6162963A (en) 1990-01-12 2000-12-19 Abgenix, Inc. Generation of Xenogenetic antibodies
WO2007113301A1 (en) * 2006-04-03 2007-10-11 Medizinische Hochschule Hannover Pharmaceuticals for influencing the reaction of the human immune system
WO2014182676A2 (en) * 2013-05-06 2014-11-13 Scholar Rock, Inc. Compositions and methods for growth factor modulation
EP2832747A1 (en) * 2013-08-01 2015-02-04 Université Catholique de Louvain Anti-GARP protein and uses thereof
WO2015015003A1 (en) * 2013-08-01 2015-02-05 Université Catholique de Louvain Anti-garp protein and uses thereof

Patent Citations (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4816567A (en) 1983-04-08 1989-03-28 Genentech, Inc. Recombinant immunoglobin preparations
US5892019A (en) 1987-07-15 1999-04-06 The United States Of America, As Represented By The Department Of Health And Human Services Production of a single-gene-encoded immunoglobulin
EP0404097A2 (en) 1989-06-22 1990-12-27 BEHRINGWERKE Aktiengesellschaft Bispecific and oligospecific, mono- and oligovalent receptors, production and applications thereof
US6162963A (en) 1990-01-12 2000-12-19 Abgenix, Inc. Generation of Xenogenetic antibodies
WO1993011161A1 (en) 1991-11-25 1993-06-10 Enzon, Inc. Multivalent antigen-binding proteins
WO2007113301A1 (en) * 2006-04-03 2007-10-11 Medizinische Hochschule Hannover Pharmaceuticals for influencing the reaction of the human immune system
WO2014182676A2 (en) * 2013-05-06 2014-11-13 Scholar Rock, Inc. Compositions and methods for growth factor modulation
EP2832747A1 (en) * 2013-08-01 2015-02-04 Université Catholique de Louvain Anti-GARP protein and uses thereof
WO2015015003A1 (en) * 2013-08-01 2015-02-05 Université Catholique de Louvain Anti-garp protein and uses thereof

Non-Patent Citations (85)

* Cited by examiner, † Cited by third party
Title
.: "Genetics Computer Group", UNIVERSITY OF WISCONSIN
ALTSCHUL ET AL., J. MOL. BIOL., vol. 215, 1990, pages 403 - 410
ARMOUR KL ET AL., EUR. J. IMMUNOL., vol. 29, 1999, pages 2613 - 2624
BOON, T. ET AL., ANNU. REV. IMMUNOL., vol. 24, 2006, pages 175 - 208
BORREBAECK, INFRA, 1995
C. BASILICO ET AL., J. CLIN. INVEST., vol. 124, 2014, pages 3172 - 3186
CABILLY ET AL., SUPRA
CARILLO ET AL., SIAM J. APPLIED MATH, vol. 48, 1988, pages 1073
CARON ET AL., J. EXP. MED., vol. 176, 1992, pages 1191 - 1195
CARTER ET AL., PNAS, vol. 89, 1992, pages 4285
CHAN; CARTER, NATURE REVIEWS: IMMUNOLOGY, vol. 10, 2010, pages 301 - 316
CHO, URLAUB ET AL., PROC. NATL. ACAD. SCI. USA, vol. 77, 1980, pages 4216
CHOMCZYNS I P ET AL., ANAL. BIOCHEM., vol. 162, 1987, pages 156 - 159
CHOTHIA ET AL., J. MOL. BIOL., vol. 196, 1987, pages 901 - 917
CHOTHIA ET AL., J. MOL. BIOL., vol. 227, 1992, pages 799 - 817
CHOTHIA; LESK, J. MOL. BIOL., vol. 196, pages 901
CLACKSON ET AL., NATURE, vol. 352, 1991, pages 624 - 628
COLOMBO ET AL., NAT. REV. CANCER, vol. 7, 2007, pages 880 - 887
DALEY LP ET AL., CLIN. DIAGN LAB IMMUNOL., vol. 12, 2005
DE HAARD H ET AL., J BIOL CHEM., vol. 274, no. 26, 25 June 1999 (1999-06-25), pages 18218 - 30
DE HAARD H ET AL., J. BACT., vol. 187, 2005, pages 4531 - 4541
DELGADO ET AL., BR. J. CANCER, vol. 73, no. 2, 1996, pages 175 - 182
DEVEREUX ET AL., NUCL. ACID. RES., vol. 2, 1984, pages 387
E. GAUTHYET, PLOS ONE, vol. 8, 2013, pages E76186
GAUTHY E ET AL., PLOS ONE, vol. 8, no. 9, 30 September 2013 (2013-09-30), pages E76186
GAUTHY E, EUR. J. IMMUNOL., vol. 39, 2009, pages 3315 - 3322
GRAHAM ET AL., J. GEN. VIROL., vol. 36, 1977, pages 59
GRIBSKOV, M. AND DEVEREUX, J.,: "Analysis Primer", 1991, M. STOCKTON PRESS
GRIFFIN, A. M., AND GRIFFIN, H. G.,: "Computer Analysis of Sequence Data, Part 1", 1994, HUMANA PRESS
HANNON ET AL., TRANSFUSION, vol. 54, no. 2, February 2014 (2014-02-01), pages 353 - 63
HOLLIGER, PROC. NATL. ACAD. SCI., vol. 90, 1993, pages 6444 - 6448
J. CUENDE ET AL: "Monoclonal antibodies against GARP/TGF- 1 complexes inhibit the immunosuppressive activity of human regulatory T cells in vivo", SCIENCE TRANSLATIONAL MEDICINE, vol. 7, no. 284, 22 April 2015 (2015-04-22), Washington, DC, pages 284ra56 - 284ra56, XP055268336, ISSN: 1946-6234, DOI: 10.1126/scitranslmed.aaa1983 *
J. DE VRIES ET AL., CLIN. CANCER RES., vol. 17, 2011, pages 841 - 848
J. STOCKIS ET AL., EUR. J. IMMUNOL., vol. 39, 2009, pages 869 - 882
JAKOBOVITZ ET AL., NATURE, vol. 362, 1993, pages 255
JONES ET AL., NATURE, vol. 321, 1986, pages 522
KABAT ET AL., J. BIOL. CHEM., vol. 252, 1977, pages 6609 - 6616
KABAT ET AL., SEQUENCES OF PROTEIN OF IMMUNOLOGICAL INTEREST, 1991
KABAT ET AL.: "Sequences of Proteins of Immunological Interest, 5th Ed.", 1991, NATIONAL INSTITUTES OF HEALTH, BETHESDA
KOHLER ET AL., NATURE, vol. 256, 1975, pages 495
LEFRANC, NAR., vol. 27, 1999, pages 209 - 212
LEONG ET AL., CYTOKINES, vol. 16, no. 3, 2001, pages 106 - 119
LESK, A. M.,: "Computational Molecular Biology", 1988, OXFORD UNIVERSITY PRESS
LIEWEN H ET AL: "Characterization of the human GARP (Golgi associated retrograde protein) complex", EXPERIMENTAL CELL RESEARCH, ACADEMIC PRESS, US, vol. 306, no. 1, 15 May 2005 (2005-05-15), pages 24 - 34, XP004876359, ISSN: 0014-4827, DOI: 10.1016/J.YEXCR.2005.01.022 *
LONNING S ET AL., CURRENT PHARMACEUTICAL BIOTECHNOLOGY, vol. 12, 2011, pages 2176 - 2189
M. M. LEMAIRE ET AL., J. IMMUNOL. METHODS, 2011
M. MIYARA ET AL., IMMUNITY, vol. 30, 2009, pages 899 - 911
MACCALLUM ET AL., J. MOL. BIOL., vol. 262, 1996, pages 732 - 745
MARKS ET AL., J. MOL. BIOL., vol. 222, 1991, pages 581 - 597
MARTIN ET AL., J. MOL. BIOL., vol. 263, 1996, pages 800 - 815
MATHER ET AL., ANNALS N.Y. ACAD. SCI., vol. 383, 1982, pages 44 - 68
MERCHANT AM ET AL., NAT BIOTECHNOL., vol. 16, no. 7, 1998, pages 677 - 81
MICHELLE M MILLER ET AL: "CD4+CD25+ T regulatory cells activated during feline immunodeficiency virus infection convert T helper cells into functional suppressors through a membrane-bound TGF[beta] / GARP-mediated mecha", VIROLOGY JOURNAL, BIOMED CENTRAL, LONDON, GB, vol. 11, no. 1, 18 January 2014 (2014-01-18), pages 7, XP021174683, ISSN: 1743-422X, DOI: 10.1186/1743-422X-11-7 *
MOREA ET AL., METHODS, vol. 20, 2000, pages 267 - 279
MORRISON ET AL., PNAS, 1984, pages 6851
MORRISON ET AL., PROC. NATL. ACAD. SCI., 1984, pages 6851
NATSUME ET AL., DRUG DESIGN DEVELOPMENT AND THERAPY, vol. 3, 2009, pages 7 - 16
ONO ET AL., MOL. IMMUNOL., vol. 36, 1999, pages 387 - 395
P. CHOMCZYNSKI ET AL., ANAL. BIOCHEM., vol. 162, 1987, pages 156 - 159
PLUCKTHUN: "The Pharmacology of Monoclonal Antibodies", vol. 113, 1994, SPRINGER-VERLAG, pages: 269 - 315
PRESTA ET AL., J. IMMUNOL., vol. 151, 1993
PRESTA, CURR. OP. STRUCT. BIOL., vol. 3, 1992, pages 394
QU ET AL., CANCER RES., vol. 5, 1999, pages 3095 - 3100
REICHMANN ET AL., NATURE, vol. 332, 1988, pages 323
RIDGWAY JB; PRESTA LG; CARTER P., PROTEIN ENG. JUL, vol. 9, no. 7, 1996, pages 617 - 21
ROUX ET AL., J. IMMUNOL., vol. 161, 1998, pages 4083
SCATCHARD G ET AL.: "The attractions of proteins for small molecules and ions", ANN NY ACAD SCI, vol. 51, 1949, pages 660 - 672, XP008000889, DOI: doi:10.1111/j.1749-6632.1949.tb27297.x
SHOPES, B., J. IMMUNOL., vol. 148, 1992, pages 2918 - 2922
SHULTZ ET AL., NATURE, vol. 12, 2012, pages 786 - 798
SHULTZ, NAT REV IMMUNOL., vol. 12, no. 11, November 2012 (2012-11-01), pages 786 - 98
SIMS ET AL., J. IMMUNOL., vol. 151, 1993, pages 2296
SMITH, D. W.,: "Biocomputing: Informatics and Genome Projects", 1993, ACADEMIC PRESS
STEVENSON ET AL., ANTI-CANCER DRUG DESIGN, vol. 3, 1989, pages 219 - 230
STOCKIS, J. ET AL., EUR. J. IMMUNOL., vol. 39, 2009, pages 869 - 882
TM4, MATHER, BIOL. REPROD., vol. 23, 1980, pages 243 - 251
TOMLINSON ET AL., EMBO J., vol. 14, 1995, pages 4628 - 38
TOMLINSON ET AL., EMBO J., vol. 14, 1995, pages 4628 - 4638
TRAMONTANE ET AL., J. MOL. BIOL, vol. 215, 1990, pages 175 - 182
TRAMONTANO ET AL., PROTEINS, vol. 6, 1989, pages 382 - 94
VERHOEYEN ET AL., SCIENCE, vol. 239, pages 1534
VON HEINJE, G.: "Sequence Analysis in Molecular Biology", 1987, ACADEMIC PRESS
WANG RUI ET AL: "GARP regulates the bioavailability and activation of TGF[beta].", MOLECULAR BIOLOGY OF THE CELL MAR 2012, vol. 23, no. 6, 15 March 2012 (2012-03-15), pages 1129 - 1139, XP055094855, ISSN: 1939-4586 *
WILLIAMS ET AL., J. MOL. BIOL., vol. 264, 1996, pages 220 - 232
WILLIAMS ET AL., J. MOL. BIOL., vol. 264, 1996, pages 220 - 32
YAMANE-OHNUKI; SATOH, MABS, vol. 1, no. 3, 2009, pages 230 - 236

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