WO2024200573A1 - Nectin-4 binding agents and methods of use - Google Patents
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- WO2024200573A1 WO2024200573A1 PCT/EP2024/058365 EP2024058365W WO2024200573A1 WO 2024200573 A1 WO2024200573 A1 WO 2024200573A1 EP 2024058365 W EP2024058365 W EP 2024058365W WO 2024200573 A1 WO2024200573 A1 WO 2024200573A1
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Classifications
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- A61P35/00—Antineoplastic agents
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- 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
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- C—CHEMISTRY; METALLURGY
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- C07K2317/00—Immunoglobulins specific features
- C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
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- C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
- C07K2317/24—Immunoglobulins specific features characterized by taxonomic origin containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered
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- C07K2317/30—Immunoglobulins specific features characterized by aspects of specificity or valency
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- 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
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- C07K—PEPTIDES
- C07K2317/00—Immunoglobulins specific features
- C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
- C07K2317/56—Immunoglobulins specific features characterized by immunoglobulin fragments variable (Fv) region, i.e. VH and/or VL
- C07K2317/569—Single domain, e.g. dAb, sdAb, VHH, VNAR or nanobody®
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- 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
- C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
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- 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
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- C07K2317/90—Immunoglobulins specific features characterized by (pharmaco)kinetic aspects or by stability of the immunoglobulin
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- C07K2317/90—Immunoglobulins specific features characterized by (pharmaco)kinetic aspects or by stability of the immunoglobulin
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Definitions
- the present disclosure provides Nectin-4 binding agents and multi-specific binding agents comprising the same.
- the present disclosure further provides methods of treating cancer in a subject in need thereof comprising administration of the Nectin-4 binding agents or multi-specific binding agents comprising the same to a subject in need thereof.
- Nectin-4 also known as poliovirus receptor-like 4 (PVRL4), is a type 1 transmembrane 66 kDa polypeptide member of the Nectin family. In adults, human Nectin-4 is mainly expressed in the placenta with low expression in other tissues including the skin, bladder, salivary gland, esophagus, breast, stomach, prostate, lung, and trachea. Nectin-4 is involved in forming and maintaining adherens junctions together with cadherins and is a stimulatory co-receptor for the prolactin receptor (Heath and Rosenberg Nature Reviews Urology 18, 93-103 (2021).
- Nectin-4 Aberrant expression of Nectin-4 has been observed in several cancer types, including bladder, breast, lung, pancreatic and ovarian cancer. Nectin-4 has been associated with promoting cancer cell proliferation and metastasis via activation of WNT-p-catenin and Rac small G protein in the PI3K-AKT signaling pathway (Siddharth, S. et al. Int. J. Biochem. Cell Biol. 89, 85-94 (2017); Zhang et al. Hum. Pathol. 72:107-116 (2018).
- Nectin-4 also interacts with the tyrosine kinase receptor ERBB2 to promote its activation, resulting in stimulation of the PI3K-AKT signalling pathway (Kedashiro et al. Sci. Rep. 9, 18997 (2019).
- Nectin-4 targeting antibodies have been described.
- Enfortumab vedotin is an anti-Nectin- 4 antibody linked to the cytotoxic agent monomethyl auristatin E approved for the treatment of urothelial cancer.
- WO 2021/257525 (BioAtla) describes CD3-binding T-cell engaging antibodies that target Nectin-4.
- Bispecific T-cell engaging antibodies have a tumor target binding specificity and a CD3- directed T-cell binding specificity and thus boost efficacy by re-directing T-cell cytotoxicity to malignant cells, see e.g. Huehls et al.
- T-cell redirecting therapies have reached late-stage clinical development, possibly due to significant toxicity, manufacturing problems, immunogenicity, narrow therapeutic windows and low response rates.
- toxicity may occur when the T- cell engager includes a CD3 binding arm and results in uncontrolled and exaggerated immune activation and cytokine release.
- Nectin-4 targeting agents such as T-cell engaging Nectin-4 targeting binding agents, that are therapeutically effective against a range of (target) tumor cells yet have acceptable toxicity, as well as good stability, developability and manufacturability properties.
- the present disclosure provides binding agents comprising a Nectin-4 antigen-binding domain. Such binding agents can target cancer cells that overexpress Nectin-4.
- the present disclosure further provides multi-specific binding agents comprising a Nectin-4 antigen-binding domain and a y5 T cell antigen-binding domain. In some embodiments, such multi-specific binding agents target the tumor cells to activated y5 T cells.
- a single domain antibody that binds to Nectin-4 comprising: (a) a complementarity determining region (CDR)1 comprising an amino acid sequence selected from SEQ ID NOs: 88, 95, 103, 110, 117, 121 , 125, 129, and 133; (b) a CDR2 comprising an amino acid sequence selected from SEQ ID NOs: 89, 96, 104, 111 , 118, 122, 126, 130, and 134; and (c) a CDR3 comprising an amino acid sequence selected from 90, 97, 105, 112, 119, 123, 127, 131 , and 135.
- CDR complementarity determining region
- the CDR1 , CDR2, and CDR3 sequences are selected from a combination disclosed in Table 1A.
- the single domain antibody comprises an amino acid sequence that is at least 90%, or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109,
- the single domain antibody comprises SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113,
- the single domain antibody consists of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
- the CDR1 comprises SEQ ID NO: 88
- the CDR2 comprises SEQ ID NO: 89
- the CDR3 comprises SEQ ID NO: 90.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, and 94. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 91 , 92, 93, and 94. In some embodiments, the CDR1 comprises SEQ ID NO: 95, the CDR2 comprises SEQ ID NO: 96, and the CDR3 comprises SEQ ID NO: 97. In some embodiments, the single antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 98, 99, 100, 101 , and 102.
- the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 98, 99, 100, 101 , and 102.
- the CDR1 comprises SEQ ID NO: 103
- the CDR2 comprises SEQ ID NO: 104
- the CDR3 comprises SEQ ID NO: 105.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 106, 107, 108, and 109.
- the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 106, 107, 108, and 109.
- the CDR1 comprises SEQ ID NO: 110
- the CDR2 comprises SEQ ID NO: 111
- the CDR3 comprises SEQ ID NO: 112.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 113, 114, 115, and 116.
- the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 113, 114, 115, and 116.
- the CDR1 comprises SEQ ID NO: 117
- the CDR2 comprises SEQ ID NO: 118
- the CDR3 comprises SEQ ID NO: 119.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 120. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 120. In some embodiments, the CDR1 comprises SEQ ID NO: 121 , the CDR2 comprises SEQ ID NO: 122, and the CDR3 comprises SEQ ID NO: 123. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 124. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 124.
- the CDR1 comprises SEQ ID NO: 125
- the CDR2 comprises SEQ ID NO: 126
- the CDR3 comprises SEQ ID NO: 127.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 128.
- the single domain antibody comprises or consist of the amino acid sequence of SEQ ID NO: 128.
- the CDR1 comprises SEQ ID NO: 129
- the CDR2 comprises SEQ ID NO: 130
- the CDR3 comprises SEQ ID NO: 131.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 132.
- the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 132.
- the CDR1 comprises SEQ ID NO: 133
- the CDR2 comprises SEQ ID NO: 134
- the CDR3 comprises SEQ ID NO: 135.
- the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 136.
- the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 136.
- the CDR1 comprises SEQ ID NO: 95
- CDR3 comprises SEQ ID NO: 96
- CDR3 comprises SEQ ID NO: 97.
- the single domain antibody comprises an amino acid sequence that is at least 90%, or at least 95% identical to SEQ ID NO: 99. In some embodiments, the single domain antibody comprises SEQ ID NO: 99. In some embodiments, the single domain antibody consists of SEQ ID NO: 99.
- a host cell comprising the polynucleotide of any one of the above aspects or embodiments or the vector of any one of the above aspects or embodiments.
- a method of producing the single domain antibody of any one of the above aspects or embodiments comprising: (a) introducing the vector of any one of the above aspects or embodiments into a host cell under conditions permitting expression of the polynucleotide encoding the single domain antibody; and (b) isolating the single domain antibody from the culture supernatant.
- composition comprising the single domain antibody of any one of the above aspects or embodiments and a pharmaceutically acceptable carrier.
- a binding agent comprising the single domain antibody of any one of the above aspects or embodiments.
- a multi-specific binding agent comprising: (a) a first antigen-binding domain that specifically binds to human Nectin-4; and comprises the single domain antibody of any one of the above aspects or embodiments; and (b) a second antigenbinding domain that specifically binds to an antigen expressed on an immune cell.
- the second antigen-binding domain specifically binds to a target antigen selected from CD3, CD2, an a8 T cell receptor, a yb T cell receptor (e.g., V52 TCR or V61 TCR).
- the first and second antigen-binding domains are present in the same polypeptide chain.
- the first antigen-binding domain and second antigen-binding domain are covalently linked via a peptide linker. In some embodiments, the first and second antigen-binding domains are present on different polypeptide chains.
- the multi-specific binding agent further comprises an Fc domain comprising a first and a second Fc domain monomer. In some embodiments, the multi-specific binding agent comprises: (a) a first polypeptide comprising the first antigen-binding domain that binds to a human Nectin-4 protein and the first Fc domain monomer; and (b) a second polypeptide comprising the second antigenbinding domain that binds to a human V52 T cell receptor and the second Fc domain monomer.
- the human V52 T cell receptor is a Vy9V52 T cell receptor.
- the antigen-binding domain that binds to the Vy9V52 T cell receptor comprises SEQ ID NO: 22.
- the antigen-binding domain that binds to the Vy9V52 T cell receptor consists of SEQ ID NO: 22.
- the multi-specific binding agent induces proliferation of Vy9V52 T cells.
- the first and second Fc domain monomers comprise a mutation at position 234 and/or 235 according to the EU numbering system.
- the first and second Fc domain monomers comprise an L234F and an L235E substitution.
- the first Fc domain monomer comprises a T366W substitution
- the second Fc domain monomer comprises T366S, L368A and Y407V substitutions, or vice versa, according to the EU numbering system; and/or the cysteine residues at position 220 according to the EU numbering system in the first and second Fc domain monomers have been deleted or substituted.
- a multi-specific binding agent comprising (a) a first antigen-binding domain that binds to human Nectin-4, where the first antigen-binding domain comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97; and (b) a second antigenbinding domain that binds to V52, where the second antigen-binding domain comprises a CDR1 comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20.
- CDR complementarity determining region
- the first antigen-binding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first and second antigen-binding domains are comprised in the same polypeptide chain.
- a multi-specific binding agent comprising (a) a first polypeptide comprising (i) a first antigen-binding domain that binds to a human Nectin-4 protein and comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97 and (ii) a first Fc domain monomer; (b) a second polypeptide comprising (i) a second antigen-binding domain that binds to a human V52 T cell receptor and comprises a CDR1 comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20 and (ii) a second Fc domain monomer.
- CDR complementarity determining region
- the first Fc domain monomer comprises SEQ ID NO: 231 and the second Fc domain monomer comprises SEQ ID NO: 230. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 230 and the second Fc domain monomer comprises SEQ ID NO: 231. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 276. In some embodiments, the second antigen-binding domain comprises SEQ ID NO: 280. In some embodiments, (a) the first polypeptide comprises SEQ ID NO: 276; and (b) the second polypeptide comprises SEQ ID NO: 280.
- an expression vector comprising the polynucleotide of any one of the above aspects or embodiments.
- a host cell comprising the polynucleotide of any one of the above aspects or embodiments or the expression vector of any one of the above aspects or embodiments.
- the cell is a CHO cell.
- a method of producing the multi-specific binding agent of any one of the above aspects or embodiments comprising culturing the host cell of any one of the above aspects or embodiments under conditions sufficient to express the multi-specific binding agent from the polynucleotide or expression vector therein and purifying the expressed multi-specific binding agent from the culture supernatant.
- a pharmaceutical composition comprising the single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multi-specific binding agent of any one of the above aspects or embodiments, and a pharmaceutically-acceptable excipient.
- a method of treating a cancer in a subject in need thereof comprising administering to the subject the single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multi-specific binding agent of any one of the above aspects or embodiments, or the pharmaceutical composition of any one of the above aspects or embodiments.
- the subject is human.
- the subject is suffering from a bladder cancer, urothelial cell cancer, head and neck cancer, choriocarcinoma, epidermoid carcinoma, or colorectal adenocarcinoma.
- Vy9V52+ T cells comprising contacting the Vy9V52+ T cells with single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multispecific binding agent of any one of the above aspects or embodiments, or the pharmaceutical composition of any one of the above aspects or embodiments.
- the protein is modified at the first position to a non-pyroglutamate forming amino acid.
- the non-pyroglutamate forming amino acid is aspartic acid.
- FIG. 1A-FIG. 1B show the expression of Nectin-4 (FIG. 1A) and percentage of Vy9 + V52 + cells out of total CD3 + T cells (FIG. 1 B) in different cancer tissues.
- (m)CRC (metastatic) colorectal cancer
- ccRCC clear cell renal cell cancer
- GBM glioblastoma multiforme
- AC adenocarcinoma
- SCC squamous cell carcinoma
- H&N head & neck cancer
- UCC urothelial cell carcinoma.
- FIG. 2A-FIG. 2D show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to CHO cells that were (FIG. 2A and FIG. 2C) and were not transfected (FIG. 2B and FIG 2D) with human Nectin-4.
- FIG. 3A-FIG. 3D show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to cynomolgus Nectin-4-transfected CHO cells (FIG. 3A and FIG. 3B) or murine Nectin-4-transfected CHO cells (FIG. 3C and FIG. 3D).
- FIG. 4A-FIG. 4H show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to BeWo cells (FIG. 4A-FIG. 4B), A-431 cells (FIG. 4C-FIG.4D), HT-29 cells (FIG. 4E-FIG.4F), and U-251 cells (FIG. 4G-FIG.4H).
- FIG. 5B show the binding profile of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm to A-431 cells (FIG. 5A) and HT-29 cells (FIG. 5B).
- FIG. 6 shows the binding profile of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm to Vy9V52 T cells.
- FIG. 7A-FIG. 7B show the Vy9V52 T cell degranulation (FIG. 7A) and cytotoxicity (FIG. 7B) in A-431 cells expressing Nectin-4 induced by increasing concentrations of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm in the presence or absence of Vy9V52 T cells.
- FIG. 8A-FIG 8B show the expression of Nectin-4 in malignant urothelial cell carcinoma (UCC) patient tissue and donor-matched non-malignant bladder tissue.
- FIG. 8A shows Nectin-4 expression as measured by the mean fluorescence intensity (MFI) as expressed by malignant (UCC) and non-malignant bladder tissue.
- FIG. 8B shows the percent Nectin-4 expression of malignant (UCC) and non-malignant bladder tissue.
- FIG. 9A-FIG. 9B show the percent tumor lysis (FIG. 9A) and Vy9V52 T cell degranulation (FIG. 9B) in head and neck and urothelial cell cancers and Nectin-4- tumors that are incubated with Vy9V52 T cells and with or without LAVA-366.
- FIG. 11 shows the effect of LAVA-366 on tumor cell lysis of bladder cancers when incubated in the absence of additional expanded (allogeneic) Vy9V52-T cells.
- FIG. 12 illustrates the different CDR numbering systems (Kabat, Chothia, IMGT, and Combined) for the 6H4 VHH.
- FIG. 13 shows a chromatograph that illustrates the retention of pyroglutamate containing and non-pyroglutamate containing multi-specific binding agents in reverse-phase HPLC.
- the present disclosure provides binding agents that specifically bind Nectin-4 and multispecific binding agents comprising the same, and methods of treating disorders (e.g., cancer) using the binding agents and/or multi-specific binding agents described herein. Definitions
- antibody and “binding agent” are used interchangeably and refer to a polypeptide or complex of polypeptides comprising at least one antigen-binding domain that specifically binds to a target antigen and includes intact immunoglobulin molecules, antigenbinding fragments thereof, and derivatives of either. Binding agents, unless specified otherwise, also includes polyclonal antibodies, monoclonal antibodies (mAbs), chimeric antibodies and humanized antibodies, and antibody fragments provided by any known technique, such as enzymatic cleavage, peptide synthesis and recombinant techniques.
- mAbs monoclonal antibodies
- humanized antibodies and antibody fragments provided by any known technique, such as enzymatic cleavage, peptide synthesis and recombinant techniques.
- a binding agent has the ability to specifically bind to an antigen under typical physiological conditions with a half-life of significant periods of time, such as at least about 30 minutes, at least about one hour, at least about two hours, at least about 8 hours, at least about 12 hours, about 24 hours or more, about 48 hours or more, about 3, 4, 5, 6, 7 or more days, etc., or any other relevant functionally-defined period (such as a time sufficient to induce, promote, enhance, and/or modulate a physiological response associated with binding agent binding to the antigen and/or time sufficient for the antibody or binding agent to recruit an effector).
- a half-life of significant periods of time such as at least about 30 minutes, at least about one hour, at least about two hours, at least about 8 hours, at least about 12 hours, about 24 hours or more, about 48 hours or more, about 3, 4, 5, 6, 7 or more days, etc., or any other relevant functionally-defined period (such as a time sufficient to induce, promote, enhance, and/or modulate a physiological response associated with binding agent binding to the
- multi-specific refers to the capability of a binding agent described herein to specifically bind two or more different target antigens or to specifically bind two or more different epitopes on a target antigen.
- multi-specific binding agent and multi-specific antibody are used interchangeably and refer to a binding agent comprising two or more antigen-binding domains (e.g., two, three, four, or more), each binding to a different target antigen or to a different epitope on the same target antigen.
- bispecific binding agent and “bispecific antibody” are used interchangeably and refer to a binding agent comprising not more than two antigen-binding domains, each binding to a different target antigen or to a different epitope on the same target antigen.
- bispecific binding agents include but are not limited to (i) IgG-like molecules with complementary CH3 domains to force heterodimerization; (ii) recombinant IgG-like dual targeting molecules, wherein the two sides of the molecule each contain the Fab fragment or part of the Fab fragment of at least two different antibodies; (iii) IgG fusion molecules, wherein full length IgG antibodies are fused to extra Fab fragment or parts of Fab fragment; (iv) Fc fusion molecules, wherein single chain Fv molecules or stabilized diabodies are fused to heavy-chain constant-domains, Fc regions, or parts thereof; (v) Fab fusion molecules, wherein different Fab fragments are fused together, fused to heavy-chain constant-domains, Fc regions or parts thereof; and (vi) scFv-and diabody-based and heavy chain-based antibodies (e.g., domain antibodies, Nanobodies®) wherein different single chain Fv molecules or different diabodies
- IgG-like molecules with complementary CH3 domains molecules include but are not limited to the Triomab® (Trion Pharma/Fresenius Biotech), the Knobs-into-Holes (Genentech), CrossMAbs (Roche) and the electrostatically-matched (Amgen, Chugai, Oncomed), the LUZ-Y (Genentech, Wranik et al. J. Biol. Chem. 2012, 287(52): 43331-9, doi: 10.1074/jbc.M112.397869.
- IgG-like dual targeting molecules include, but are not limited to, Dual Targeting (DT)-lg (GSK/Domantis, W02009058383), Two-in-one Antibody (Genentech, Bostrom, et al 2009. Science 323, 1610-1614), Cross-linked Mabs (Karmanos Cancer Center), mAb2 (F-Star), ZybodiesTM (Zyngenia, LaFleur et al. MAbs.
- DT Dual Targeting
- GSK/Domantis W02009058383
- Two-in-one Antibody Genentech, Bostrom, et al 2009. Science 323, 1610-1614
- Cross-linked Mabs Karmanos Cancer Center
- mAb2 F-Star
- ZybodiesTM Zyngenia, LaFleur et al. MAbs.
- IgG fusion molecules include but are not limited to Dual Variable Domain (DVD)-lg (Abbott), Dual domain double head antibodies (Unilever; Sanofi Aventis), IgG-like Bispecific (ImClone/Eli Lilly, Lewis et al. Nat Biotechnol. 2014 Feb;32(2):191-8), Ts2Ab (Medlmmune/AZ, Dimasi et al. J Mol Biol.
- DVD Dual Variable Domain
- UPD Dual domain double head antibodies
- IgG-like Bispecific ImClone/Eli Lilly, Lewis et al. Nat Biotechnol. 2014 Feb;32(2):191-8
- Ts2Ab Medlmmune/AZ, Dimasi et al. J Mol Biol.
- Fc fusion molecules include but are not limited to scFv/Fc Fusions (Academic Institution, Pearce et al Biochem Mol Biol Int. 1997 Sep;42(6):1179), SCORPION (Emergent BioSolutions/Trubion, Blankenship JW, et al. AACR 100th Annual meeting 2009 (Abstract #5465); Zymogenetics/BMS, W02010111625), Dual Affinity Retargeting Technology (Fc-DARTTM) (MacroGenics) and Dual(ScFv)2-Fab (National Research Center for Antibody Medicine - China).
- Fab fusion bispecific antibodies include but are not limited to F(ab)2 (Medarex/AMGEN), Dual-Action or Bis-Fab (Genentech), Dock-and-Lock® (DNL) (ImmunoMedics), Bivalent Bispecific (Biotecnol) and Fab-Fv (UCB-Celltech).
- scFv-, diabody-based and domain antibodies include but are not limited to Bispecific T Cell Engager (BiTE®) (Micromet, Tandem Diabody (Tandab) (Affimed), Dual Affinity Retargeting Technology (DARTTM) (MacroGenics), Single-chain Diabody (Academic, Lawrence FEBS Lett. 1998 Apr 3;425(3):479-84), TCR-like Antibodies (AIT, ReceptorLogics), Human Serum Albumin ScFv Fusion (Merrimack, WO2010059315) and COMBODY molecules (Epigen Biotech, Zhu et al. Immunol Cell Biol. 2010 Aug;88(6):667-75), dual targeting nanobodies® (Ablynx, Hmila et al., FASEB J. 2010), dual targeting heavy chain only domain antibodies.
- BiTE® Bispecific T Cell Engager
- DARTTM Dual Affinity Retargeting Technology
- Single-chain Diabody Academic,
- human Nectin-4 when used herein, refers to the human Nectin-4 protein (UniProt Q96NY8 ⁇ NECT4_HUMAN).
- the sequence of human Nectin-4 is set forth in SEQ ID NO:265.
- antigen-binding domain or “antigen-binding region” refers to a portion of a binding agent that specifically binds a target antigen or target epitope.
- Antigen-binding domains may comprise variable regions of both the heavy and light chains of an antibody or antigen-binding fragments thereof, including single domain antibodies.
- Single-domain antibodies may contain only the variable domain of an immunoglobulin chain, i.e. CDR1 , CDR2, and CDR3 and framework regions.
- an antigen-binding fragment refers to a polypeptide comprising at least one complementarity determining region (CDR) that binds to at least one epitope of an antigen of interest (e.g., Nectin-4).
- an antigen-binding fragment may comprise 1 , 2, 3, 4, 5, or all 6 CDRs of a variable heavy chain (VH) and/or variable light chain (VL) sequence.
- Antigen-binding fragments include proteins that comprise a portion of a full length immunoglobulin, generally the antigen-binding or variable region thereof, such as Fab, F(ab’)2, Fab’, Fd, Fv fragments, minibodies, diabodies, single domain antibodies (dAb, also known as VHH, camelid antibodies, or nanobodies), single-chain variable fragments (scFv), rlgG, antibody mimetics, and any other modified configuration of the immunoglobulin molecule that comprises an antigen-binding fragment of the required specificity.
- immunoglobulin as used herein is intended to refer to a class of structurally related glycoproteins typically consisting of two pairs of polypeptide chains, one pair of light (L) chains and one pair of heavy (H) chains, all four potentially inter-connected by disulfide bonds, although some mammalian species also produce heavy-chain only antibodies or binding agents.
- immunoglobulin heavy chain “heavy chain of an immunoglobulin” or “heavy chain” as used herein is intended to refer to one of the chains of an immunoglobulin.
- a heavy chain is typically comprised of a heavy chain variable region (abbreviated herein as VH) and a heavy chain constant region (abbreviated herein as CH) which defines the isotype of the immunoglobulin.
- the heavy chain constant region typically is comprised of three domains, CH1 , CH2, and CH3.
- the heavy chain constant region further comprises a hinge region. Within the structure of the immunoglobulin (e.g. IgG), the two heavy chains are inter-connected via disulfide bonds in the hinge region. Equally to the heavy chains, each light chain is typically comprised of several regions: a light chain variable region (VL) and a light chain constant region (CL).
- VH and VL regions may be subdivided into regions of hypervariability (or hypervariable regions which may be hypervariable in sequence and/or form structurally defined loops), also termed complementarity determining regions (CDRs), interspersed with regions that are more conserved, termed framework regions (FRs).
- CDRs complementarity determining regions
- FRs framework regions
- Each VH and VL is typically composed of three CDRs and four FRs, arranged from amino-terminus to carboxy-terminus in the following order: FR1 , CDR1 , FR2, CDR2, FR3, CDR3, FR4.
- CDR sequences may be determined by use of various methods, e.g. the methods provided by Kabat et al. (1991), “Sequence of protein of immunological interest,” fifth edition. NIH publication or Chothia and Lesk (1987) J. Mol. Biol. 196:901.
- Various methods for CDR determination and amino acid numbering can be compared on www.
- the constant regions of an immunoglobulin may mediate the binding of the immunoglobulin to host tissues or factors, including various cells of the immune system (such as effector cells and T cells) and components of the complement system such as C1 q, the first component in the classical pathway of complement activation.
- various cells of the immune system such as effector cells and T cells
- components of the complement system such as C1 q, the first component in the classical pathway of complement activation.
- single domain antibody refers to an antigen-binding fragment comprising a single monomeric variable domain (Koch-Nolte, et al, FASEB J., 21 : 3490-3498 (2007)).
- a single domain antibody comprises three CDRs.
- Examples of single-domain antibodies are variable fragments of heavy- chain-only antibodies, antibodies that naturally do not comprise light chains, single-domain antibodies derived from conventional antibodies and engineered antibodies. Single-domain antibodies may be derived from any species.
- VHH molecules can be derived from antibodies raised in Camelidae species, for example in camel, dromedary, llama, alpaca and guanaco.
- a single-domain antibody is able to bind selectively to a specific antigen.
- Single-domain antibodies may contain only the variable domain of an immunoglobulin chain, i.e. CDR1 , CDR2 and CDR3 and framework regions.
- CDR complementarity determining region
- HCDR1 , HCDR2, and HCDR3 three CDRs in each heavy chain variable region
- LCDR1 , LCDR2, and LCDR3 three CDRs in each light chain variable region
- the precise amino acid sequence boundaries of a given CDR can be determined using any of a number of well-known schemes, including those described by Kabat et al. (1991), “Sequences of Proteins of Immunological Interest,” 5th Ed. Public Health Service, National Institutes of Health, Bethesda, Md.
- antigen refers to a molecule or a portion of a molecule capable of being bound by an antibody or an antigen-binding fragment thereof and additionally capable of being used in an animal to produce antibodies capable of binding to an epitope of that antigen.
- K D Antibody or antigen-binding fragment binding to a target antigen is typically demonstrated by a dissociation constant (K D ).
- K D is intended to refer to the dissociation equilibrium constant of a particular antibody-antigen interaction.
- the ratio of dissociation rate (k O ff) to association rate (k on ) of an antibody to a monovalent antigen (k 0 ff/k 0n ) is the dissociation constant KD, which is inversely related to affinity. The lower the KD value, the higher the affinity of the antibody.
- the value of K D varies for different complexes of antibody and antigen and depends on both k on and k O ff.
- the dissociation constant K D for an antibody provided herein can be determined using any method provided herein or any other method well known to those skilled in the art.
- binds or “specifically binds” refer to the binding of an binding agent to a predetermined antigen or target (e.g. human Nectin-4 or V62) to which binding typically is with an affinity corresponding to a K D of about 10 -6 M or less, e.g. 10 -7 M or less, such as about 10 -8 M or less, such as about 10 -9 M or less, about 10 -10 M or less, or about 10 -11 M or even less, e.g. when determined as described in the Examples herein.
- a predetermined antigen or target e.g. human Nectin-4 or V62
- K D values can for example be determined using for instance surface plasmon resonance (SPR) technology in a BIAcore T200 or bio-layer interferometry (BLI) in an Octet RED96 instrument using the antigen as the ligand and the binding moiety or binding molecule as the analyte.
- Specific binding means that the antibody binds to the predetermined antigen with an affinity corresponding to a K D that is at least ten-fold lower, such as at least 100-fold lower, for instance at least 1 ,000 fold lower, such as at least 10,000 fold lower, for instance at least 100,000 fold lower than its affinity for binding to a non-specific antigen (e.g., BSA, casein) other than the predetermined antigen or a closely- related antigen.
- a non-specific antigen e.g., BSA, casein
- the degree with which the affinity is lower is dependent on the K D of the binding moiety or binding molecule, so that when the K D of the binding moiety or binding molecule is very low (that is, the binding moiety or binding molecule is highly specific), then the degree with which the affinity for the antigen is lower than the affinity for a non-specific antigen may be at least 10,000-fold.
- nucleic acid is used interchangeably with “oligonucleotide,” and “nucleic acid” herein, and generally means a polymer of DNA or RNA, which can be single-stranded or double-stranded, synthesized or obtained (e.g., isolated and/or purified) from natural sources, which can contain natural, non-natural or altered nucleotides, and which can contain a natural, non-natural or altered internucleotide linkage, such as a phosphoroamidate linkage or a phosphorothioate linkage, instead of the phosphodiester found between the nucleotides of an unmodified oligonucleotide, in some embodiments, the nucleic acid does not comprise any insertions, deletions, inversions, and/or substitutions. However, it may be suitable in some instances, as discussed herein, for the nucleic acid to comprise one or more insertions, deletions, inversions, and/or substitutions.
- the term “host cell” refers to any type of cell that comprises a vector or polynucleotide described herein and is typically used in the manufacturing of proteins (e.g., in the manufacturing of a single domain antibody).
- cancer refers to a disease characterized by the rapid and uncontrolled growth of aberrant cells.
- subject refers to a vertebrate or an invertebrate, and includes mammals, birds, fish, reptiles, and amphibians. Subjects include humans and other primates, including non-human primates such as chimpanzees and other apes and monkey species.
- Subjects include farm animals such as cattle, sheep, pigs, goats and horses; domestic mammals such as dogs and cats; laboratory animals including rodents such as mice, rats and guinea pigs; birds, including domestic, wild and game birds such as chickens, turkeys and other gallinaceous birds, ducks, geese, and the like; and aquatic animals such as fish, shrimp, and crustaceans.
- first and second antigen-binding domains when used herein do not refer to their orientation I position in the antibody, i.e. they have no meaning with regard to the N- or C- terminus.
- first and second only serve to correctly and consistently refer to the two different antigen-binding domains in the claims and the description.
- a “variant binding agent”, “variant antibody”, “binding agent variant”, or “antibody variant” is a binding agent which comprises one or more mutations (substitutions, deletions, or insertions) as compared to a binding agent described herein (referred to as a “parent binding agent” or “parent antibody”).
- the percent identity between two nucleotide or amino acid sequences may e.g. be determined using the algorithm of E. Meyers and W. Miller, Comput. Appl. Biosci 4, 11-17 (1988) which has been incorporated into the ALIGN program (version 2.0), using a PAM120 weight residue table, a gap length penalty of 12 and a gap penalty of 4.
- Nectin-4 is a member of the Nectin superfamily. Nectin-4 is involved in cellular adhesion. Human Nectin-4 is a 510 amino acid protein. The amino acid sequence of wild type human Nectin- 4 is provided as SEQ ID NO: 256. Representative Nectin-4 polynucleotide sequences (NCBI Gene ID: 81607) include NM_030916 among others, each of which are available at the Nectin-4 gene page on the NCBI website.
- the present disclosure provides binding agents comprising at least one antigen-binding domain that specifically binds to human Nectin-4 - referred to herein as Nectin-4 binding agents.
- the Nectin-4 binding agent is an immunoglobulin or an antigen-binding fragment thereof.
- the Nectin-4 binding agent is a single domain antibody.
- the Nectin-4 binding agent comprises a first antigen-binding domain comprising a CDR1 comprising an amino acid sequence selected from SEQ ID NOs: 88, 95, 103, 110, 117, 121 , 125, 129, and 133, a CDR2 comprising an amino acid sequence selected from SEQ ID NOs: 89, 96, 104, 111 , 118, 122, 126, 130, and 134; and a CDR3 comprising an amino acid sequence selected from SEQ ID NOs: 90, 97, 105, 112, 119, 123, 127, 131 , and 135.
- the Nectin-4 binding agent comprises first antigen-binding domain comprising a CDR1 , CDR2, and CDR3 combination selected from Table 1A, 1B, 1C, or 1 D.
- Nectin-4 binding agent comprises first antigen-binding domain comprising an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
- the Nectin-4 binding agent comprises first antigen-binding domain comprising an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
- the Nectin-4 binding agent comprises a first antigen-binding domain consisting of an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
- CDR sequences of a given binding agent as determined by multiple numbering systems are compiled into a single sequence that encompasses the entirety of each of the CDR amino acid ranges in the variable region.
- CDRs for the 6H4 VHH described in Tables 1A, 1B, and 1C are shown in Fig. 12.
- the N- and C-terminal ranges for each CDR region are indicated by dashed lines.
- the combined CDR sequences covering the entirety of these ranges are shown in the last row.
- Illustrative combined CDRs for Nectin-4 binding agents are shown in Table 1D.
- a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 27, a CDR2 amino acid sequence comprising SEQ ID NO: 28, and a CDR3 amino acid sequence comprising SEQ ID NO: 29 as defined by the Kabat numbering system
- a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 46, a CDR2 amino acid sequence comprising SEQ ID NO: 47, and a CDR3 amino acid sequence comprising SEQ ID NO: 48 as defined by the IMGT numbering system
- a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 64, a CDR2 amino acid sequence comprising SEQ ID NO
- the first antigen-binding domain comprise one or more framework regions (FR).
- the binding agent disclosed herein are of the format FR1- CDR1-FR2-CDR2-FR3-CDR3-FR4. Exemplary framework regions are shown in Table 2 below.
- the first antigen-binding domain comprises an FR1 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 234, 238, 242, and 246.
- the first antigen-binding domain comprises an FR1 amino acid sequence that comprises or consists of SEQ ID NOs: 234, 238, 242, and 246. In some embodiments, the first antigen-binding domain comprises an FR2 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 235, 239, 243, and 247. In some embodiments, the first antigen-binding domain comprises an FR2 amino acid sequence that comprises or consists of SEQ ID NOs: 235, 239, 243, and 247.
- the first antigen-binding domain comprises an FR3 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 236, 240, 244, and 248. In some embodiments, the first antigen-binding domain comprises an FR3 amino acid sequence that comprises or consists of SEQ ID NOs: 236, 240, 244, and 248.
- the first antigen-binding domain comprises an FR4 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 237, 241 , 245, and 249.
- the first antigen-binding domain comprises an FR4 amino acid sequence that comprises or consists of SEQ ID NOs: 237, 241 , 245, and 249.
- the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 234, 88, 235, 89, 236, 90, and 238.
- the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 238, 95, 239, 96, 240, 97, and 241. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 242, 103, 243, 104, 244, 105, and 245. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 234, 110, 235, 111 , 236, 112, and 238.
- the binding agent described herein comprises a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 88, a CDR2 amino acid sequence comprising SEQ ID NO: 89, and a CDR3 amino acid sequence comprising SEQ ID NO: 90.
- one or more of CDR1 , CDR2, or CDR3 comprise one or two amino acid modification (e.g., a substitution, insertion, or deletion).
- CDR1 comprises the amino acid sequence of SEQ ID NO: 88, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 89, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 90, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 88, a CDR2 amino acid sequence consisting of SEQ ID NO: 89, and a CDR3 amino acid sequence consisting of SEQ ID NO: 90.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 91. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 91 . In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 . In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 92.
- the first antigen-binding domain comprises SEQ ID NO: 92. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 92. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 93. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 93. In some embodiments, the first antigenbinding domain consists of SEQ ID NO: 93.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 94. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 94. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 94. [0083] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 95, a CDR2 amino acid sequence comprising SEQ ID NO: 96, and a CDR3 amino acid sequence comprising SEQ ID NO: 97.
- one or more of CDR1 , CDR2, or CDR3 comprise one or two amino acid modification (e.g., a substitution, insertion, or deletion).
- CDR1 comprises the amino acid sequence of SEQ ID NO: 95, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 96, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 97, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 95, a CDR2 amino acid sequence consisting of SEQ ID NO: 96, and a CDR3 amino acid sequence consisting of SEQ ID NO: 97.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 98. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 98. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 99.
- the first antigen-binding domain comprises SEQ ID NO: 99. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 99. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 100. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 100. In some embodiments, the first antigenbinding domain consists of SEQ ID NO: 100.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 101. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 101. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 101. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 102. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 102. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 102.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 103, a CDR2 amino acid sequence comprising SEQ ID NO: 104, and a CDR3 amino acid sequence comprising SEQ ID NO: 105.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 103, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 104, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 105, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 103, a CDR2 amino acid sequence consisting of SEQ ID NO: 104, and a CDR3 amino acid sequence consisting of SEQ ID NO: 105.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 106. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 106. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 107.
- the first antigen-binding domain comprises SEQ ID NO: 107. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 107. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 108. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 108. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 108.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 109. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 109. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 109.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 110, a CDR2 amino acid sequence comprising SEQ ID NO: 111 , and a CDR3 amino acid sequence comprising SEQ ID NO: 112.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 110, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 111 , wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 112, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 110, a CDR2 amino acid sequence consisting of SEQ ID NO: 111 , and a CDR3 amino acid sequence consisting of SEQ ID NO: 112.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 113.
- the first antigen-binding domain comprises SEQ ID NO: 113.
- the first antigen-binding domain consists of SEQ ID NO: 113.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 114.
- the first antigen-binding domain comprises SEQ ID NO: 114. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 114. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 115. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 115. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 115.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 116. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 116. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 116.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 117, a CDR2 amino acid sequence comprising SEQ ID NO: 118, and a CDR3 amino acid sequence comprising SEQ ID NO: 119.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 117, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 118, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 119, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 117, a CDR2 amino acid sequence consisting of SEQ ID NO: 118, and a CDR3 amino acid sequence consisting of SEQ ID NO: 119.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 120.
- the first antigen-binding domain comprises SEQ ID NO: 120.
- the first antigen-binding domain consists of SEQ ID NO: 120.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 121 , a CDR2 amino acid sequence comprising SEQ ID NO: 122, and a CDR3 amino acid sequence comprising SEQ ID NO: 123.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 121 , wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 122, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 123, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 121 , a CDR2 amino acid sequence consisting of SEQ ID NO: 122, and a CDR3 amino acid sequence consisting of SEQ ID NO: 123.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 124.
- the first antigen-binding domain comprises SEQ ID NO: 124.
- the first antigen-binding domain consists of SEQ ID NO: 124.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 125, a CDR2 amino acid sequence comprising SEQ ID NO: 126, and a CDR3 amino acid sequence comprising SEQ ID NO: 127.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 125, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 126, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 127, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 125, a CDR2 amino acid sequence consisting of SEQ ID NO: 126, and a CDR3 amino acid sequence consisting of SEQ ID NO: 127.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 128.
- the first antigen-binding domain comprises SEQ ID NO: 128.
- the first antigen-binding domain consists of SEQ ID NO: 128.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 129, a CDR2 amino acid sequence comprising SEQ ID NO: 130, and a CDR3 amino acid sequence comprising SEQ ID NO: 131.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 129, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 130, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 131 , wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 129, a CDR2 amino acid sequence consisting of SEQ ID NO: 130, and a CDR3 amino acid sequence consisting of SEQ ID NO: 131.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 132.
- the first antigen-binding domain comprises SEQ ID NO: 132.
- the first antigen-binding domain consists of SEQ ID NO: 132.
- the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 133, a CDR2 amino acid sequence comprising SEQ ID NO: 134, and a CDR3 amino acid sequence comprising SEQ ID NO: 135.
- CDR1 comprises the amino acid sequence of SEQ ID NO: 133, wherein one or two amino acids are modified.
- CDR2 comprises the amino acid sequence of SEQ ID NO: 134, wherein one or two amino acids are modified.
- CDR3 comprises the amino acid sequence of SEQ ID NO: 135, wherein one or two amino acids are modified.
- the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 133, a CDR2 amino acid sequence consisting of SEQ ID NO: 134, and a CDR3 amino acid sequence consisting of SEQ ID NO: 135.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 136.
- the first antigen-binding domain comprises SEQ ID NO: 136.
- the first antigen-binding domain consists of SEQ ID NO: 136.
- one or more amino acid substitutions are introduced into a Nectin- 4 binding agent described herein.
- the one or more amino acid substitutions is a conservative amino acid substitution.
- the phrase "conservative amino acid substitution” or “conservative mutation” refers to the replacement of one amino acid by another amino acid with a common property.
- a functional way to define common properties between individual amino acids is to analyze the normalized frequencies of amino acid changes between corresponding proteins of homologous organisms (Schulz, G. E. and Schirmer, R. H., Principles of Protein Structure, Springer-Verlag, New York (1979)).
- groups of amino acids may be defined where amino acids within a group exchange preferentially with each other, and therefore resemble each other most in their impact on the overall protein structure (Schulz, G. E. and Schirmer, R. H., supra).
- conservative mutations include amino acid substitutions of amino acids within the sub-groups above, for example, lysine for arginine and vice versa such that a positive charge may be maintained; glutamic acid for aspartic acid and vice versa such that a negative charge may be maintained; serine for threonine such that a free -OH can be maintained; and glutamine for asparagine such that a free -NH2 can be maintained.
- amino acid classes are provided in Table 3, Table 4, and Table 5 below.
- the one or more amino acid substitutions is a non-conservative amino acid substitution.
- “Non-conservative substitutions” involve amino acid substitutions between different groups, for example, lysine for tryptophan, or phenylalanine for serine, etc. In this case, it is preferable for the non-conservative amino acid substitution to not interfere with or inhibit the biological activity of the binding agent (i.e. , does not interfere with binding to the target antigen).
- the non-conservative amino acid substitution may enhance the biological activity of the functional variant, such that the biological activity of the functional variant is increased as compared to the parent binding agent.
- the binding agents described herein are chimeric antibodies, wherein the variable region is derived from a non-human species (e.g. derived from rodents) and the constant region is derived from a different species, such as human.
- Chimeric antibodies may be generated by genetic engineering. Chimeric monoclonal antibodies for therapeutic applications are developed to reduce antibody immunogenicity.
- the binding agents described herein are humanized immunoglobulins or antigen-binding fragments thereof.
- a “humanized” immunoglobulin is an immunoglobulin including a human framework region and one or more CDRs from a non-human (such as a mouse, rat, or synthetic) immunoglobulin.
- the non-human immunoglobulin providing the CDRs is termed a “donor,” and the human immunoglobulin providing the framework is termed an “acceptor.”
- all the CDRs are from the donor immunoglobulin in a humanized immunoglobulin.
- Constant regions need not be present, but if they are, they must be substantially identical to human immunoglobulin constant regions, such as at least about 85-90%, such as about 95% or more identical. Hence, all parts of a humanized immunoglobulin, except possibly the CDRs, are substantially identical to corresponding parts of natural human immunoglobulin sequences.
- a “humanized antibody” is an antibody comprising a humanized light chain and/or a humanized heavy chain immunoglobulin.
- a humanized antibody binds to the same antigen as the donor antibody that provides the CDRs.
- the acceptor framework of a humanized immunoglobulin or antibody may have a limited number of substitutions by amino acids taken from the donor framework.
- Humanized or other monoclonal antibodies can have additional conservative amino acid substitutions which have substantially no effect on antigen-binding or other immunoglobulin functions.
- Humanized immunoglobulins can be constructed by means of genetic engineering (for example, see U.S. Patent No. 5,585,089).
- the Nectin-4 binding agents described herein have a binding affinity (K D ) for human Nectin-4 of less than 10“ 7 M, such as approximately less than 10“ 8 M, less than 10“ 9 M, or less than 10“ 1 ° M when determined by surface plasmon resonance (SPR) using recombinant human Nectin-4 as the analyte and the Nectin-4 binding agent as the ligand.
- K D binding affinity for human Nectin-4 of less than 10“ 7 M, such as approximately less than 10“ 8 M, less than 10“ 9 M, or less than 10“ 1 ° M when determined by surface plasmon resonance (SPR) using recombinant human Nectin-4 as the analyte and the Nectin-4 binding agent as the ligand.
- the binding agent binds to human Nectin-4 with an affinity that is at least 1.1-, 1.2- , 1.3-, 1.4-, 1.5-, 1.6-, 1.7-, 1.8-, 1.9-, 2.0-, 2.5-, 3.0-, 3.5-, 4.0-, 4.5-, 5.0-, 6.0-, 7.0-, 8.0-, 9.0-, or 10.0-fold or greater than its affinity for binding to a non-specific antigen (e.g., BSA, casein).
- a non-specific antigen e.g., BSA, casein
- Methods of testing binding agents for the ability to bind a target antigen include any antibody-antigen binding assay, such as, for example, radioimmunoassay (RIA), ELISA, Western blot, immunoprecipitation, and competitive inhibition assays (see, e.g., Janeway et al., infra, U.S. Patent Application Publication No. 2002/0197266 Al, and U.S. Patent No. 7,338,929).
- RIA radioimmunoassay
- ELISA ELISA
- Western blot Western blot
- immunoprecipitation immunoprecipitation
- competitive inhibition assays see, e.g., Janeway et al., infra, U.S. Patent Application Publication No. 2002/0197266 Al, and U.S. Patent No. 7,338,929.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to recombinant Nectin-4 protein with a K D of less than 10 nM, for example less than 5 nM, less than 2 nM, less than 1 nM or less than 0.5 nM, as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to recombinant Nectin-4 protein with a KD of between 10 nM and 1 nM, such as between 5 nM and 1 nM as determined by BioLayer Interferometry according to the methods described in Example 5 herein.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to BeWo cells with an EC50 of less than 0.5 nM, when tested as described in Example 3 herein. In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to A-431 cells with an EC50 of less than 0.5 nM, when tested as described in Example 3 herein. In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to HT-29 cells with an EC50 of less than 2 nM, when tested as described in Example 3 herein.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to Vy9V52 T cells with an EC50 of less than 5 nM, such as less than 2 nM, less than 1 nM, or less than 0.5 nM when tested as described in Example 9 herein.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein capable of binding cynomolgus Nectin-4 and/or murine Nectin-4.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of mediating killing of Nectin-4-expressing tumor cells, such as BeWo, A-431 , or HT-29 cells, by Vy9V52 T cells.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of inducing killing of A-431 cells through activation of Vy9V52 T cells with an EC50 value of 100 pM or less, such as 20 pM or less, e.g. 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are not capable of mediating killing of Nectin-4-negative cells, such as Nectin-4 negative human cells.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of mediating killing of Nectin-4-positive cells, such as Nectin-4-positive tumor cells, by Vy9V52 T cells.
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are:
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are:
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein have all of the following properties:
- the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein have all of the following properties:
- “capable of competing” or “able to compete” or “competes” refers to any detectably significant reduction in the propensity for a particular binding molecule (e.g., a Nectin-4 binding agent) to bind a particular binding partner (e.g. Nectin-4) in the presence of another molecule (e.g. a different Nectin-4 binding agent) that binds the binding partner.
- a particular binding molecule e.g., a Nectin-4 binding agent
- a particular binding partner e.g. Nectin-4 binding agent
- another molecule e.g. a different Nectin-4 binding agent
- competition means that saturating binding of the first binding agent to the antigen (Nectin-4) blocks or prevents binding of the second binding agent, as determined by, e.g., biolayer interferometry (BLI) as described in Example 6 herein using sufficient amounts of the two (or more) competing binding agents.
- BLI biolayer interferometry
- Additional methods for determining binding specificity by competitive inhibition may be found in for instance Harlow et al., Antibodies: A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y., (1988), Colligan et al., eds., Current Protocols in Immunology, Greene Publishing Assoc, and Wiley InterScience N. Y., (1992, 1993), and Muller, Meth. Enzymol. 92, 589-601 (1983).
- the binding agent or multi-specific comprising the same of the present disclosure binds to the same epitope on Nectin-4 as Nectin-4 binding agents LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185 LV1186 and/or LV1187 and/or to the same epitope on V52 as the 5C8 or 6H4 binding agents (WO 2015/156673) or the variants of 5C8 set forth in SEQ ID NOs: 8, 9, 13, 17, 21 , 22, and 26.
- Epitope residues can be determined as being all amino acid residues with at least one atom less than or equal to 5 A from the antibody. 5 A was chosen as the epitope cutoff distance to allow for atoms within a van der Waals radius plus a possible water-mediated hydrogen bond.
- epitope residues can be determined as being all amino acid residues with at least one atom less than or equal to 8 A.
- Crosslinking coupled mass spectrometry begins by binding the antibody and the antigen with a mass labeled chemical crosslinker. Next the presence of the complex is confirmed using high mass MALDI detection. Because after crosslinking chemistry the Ab/Ag complex is extremely stable, many various enzymes and digestion conditions can be applied to the complex to provide many different overlapping peptides. Identification of these peptides is performed using high resolution mass spectrometry and MS/MS techniques. Identification of the crosslinked peptides is determined using mass tag linked to the cross-linking reagents.
- peptides that are crosslinked and are derived from the antigen are part of the epitope, while peptides derived from the binding agent are part of the paratope. All residues between the most N- and C-terminal crosslinked residue from the individual crosslinked peptides found are considered to be part of the epitope or paratope.
- the Nectin-4 binding agent is a multi-specific binding agent.
- the multi-specific binding agent comprises a first antigen-binding domain that specifically binds to human Nectin-4 described above and a second antigen-binding domain that specifically binds to a second target antigen or epitope (e.g., a bispecific binding agent).
- the multi-specific binding agent comprises a first antigen-binding domain that specifically binds to human Nectin-4, a second antigen-binding domain that specifically binds to a second target antigen or epitope, and a third antigen-binding domain that specifically binds to a third target antigen or epitope.
- the multi-specific binding agent is in a VHH-Fc format, i.e. the binding agent comprises two or more single-domain antigen-binding domains that are linked to each other via a human Fc domain dimer.
- each single-domain antigen-binding domain is fused to an Fc region polypeptide and the two fusion polypeptides form a dimeric bispecific binding agent via disulfide bridges in the hinge region.
- Such constructs typically do not contain full, or any, CH1 or light chain sequences.
- Figure 12B of WO 2006/064136 provides an illustration of an example of this embodiment.
- the multi-specific binding agents provided herein comprise a first antigen-binding domain that specifically binds to human Nectin-4 and a second antigen-binding domain that specifically binds to an antigen expressed on an immune cell.
- immune cell refers to cells involved in mounting innate and adaptive immune responses, including but not limited to lymphocytes (such as T-cells and B-cells), natural killer (NK) cells, NKT cells, macrophages, monocytes, eosinophils, basophils, neutrophils, dendritic cells, and mast cells.
- the immune cell is a T cell, such as a CD4+ T cell, a CD8+ T cell (also referred to as a cytotoxic T cell or CTL), or a yb T cell. In some embodiments, the immune cell is cell.
- the second antigen-binding domain specifically binds to a target antigen selected from CD3, CD2, a8 T cell receptors, Y ⁇ 5 T cell receptors (e.g., V52 TCR or V51 TCR), CD56, CD16, CD19, and CD20.
- a target antigen selected from CD3, CD2, a8 T cell receptors, Y ⁇ 5 T cell receptors (e.g., V52 TCR or V51 TCR), CD56, CD16, CD19, and CD20.
- the second antigen-binding domain specifically binds to a Y ⁇ 5 T cell receptor.
- Antigen-binding domains that specifically bind to V51 + T cells are known in the art. See e.g., WO 2021/032963.
- Antigen-binding domains that specifically bind to V52+ T cell receptors are known in the art. See e.g., WO 2015/156673, WO 2022/008646, WO 2022/122973, and WO 2023/242319, each disclosing antigen-binding domains that specifically bind to V52 and each incorporated herein by reference.
- the second antigen-binding domain specifically binds to human V52.
- the multi-specific binding agents provided herein are capable of binding the V52 chain of a Vy9V52-TCR. “Capable of binding the V52 chain of a VY9V52-TCR” means that the binding agent disclosed herein or multi-specific binding agent comprising the same can bind the V52 chain as a separate molecule and/or as part of a Vy9V52-TCR. This can be referred to as a V52 binding agent. However, the binding agent or multi-specific binding agent comprising the same will not bind to the Vy9 chain as a separate molecule.
- human V52 when used herein, refers to the rearranged 52 chain of the Vy9V52-T cell receptor (TCR).
- TCR Vy9V52-T cell receptor
- UniProtKB - A0JD36 A0JD36_HUMAN gives an example of a variable TRDV2 sequence.
- the sequence of human V52 is set forth in SEQ ID NO:266.
- Exemplary Vy9V52 TCR antigen-binding domain sequences are shown in Table 6A, Table 6B, Table 6C, and Table 6D.
- Table 6A Exemplary V52 TCR-specific CDR (Kabat) and VHH Sequences
- Table 6B Exemplary V52 TCR-specific CDR Sequences (IMGT)
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89, and a CDR3 of SEQ ID NO: 90; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94
- the second antigenbinding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96, and a CDR3 of SEQ ID NO: 97; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104, and a CDR3 of SEQ ID NO: 105; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 106, 107, 108, and 109
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 106, 107, 108, and 109
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 106, 107, 108, and 109
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 , and a CDR3 of SEQ ID NO: 112; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 113, 114, 115, and 116
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 113, 114, 115, and 116
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 113, 114, 115, and 116
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 117, a CDR2 of SEQ ID NO: 118, and a CDR3 of SEQ ID NO: 119; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 120
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigenbinding domain comprises SEQ ID NO: 120
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of SEQ ID NO: 120
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 121 , a CDR2 of SEQ ID NO: 122, and a CDR3 of SEQ ID NO: 123; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 124
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigenbinding domain comprises SEQ ID NO: 124
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of SEQ ID NO: 124
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 125, a CDR2 of SEQ ID NO: 126, and a CDR3 of SEQ ID NO: 127; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 128, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigenbinding domain comprises SEQ ID NO: 128, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 128, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 129, a CDR2 of SEQ ID NO: 130, and a CDR3 of SEQ ID NO: 131 ; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 132
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigenbinding domain comprises SEQ ID NO: 132
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of SEQ ID NO: 132
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 133, a CDR2 of SEQ ID NO: 134, and a CDR3 of SEQ ID NO: 135; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs).
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 136
- the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigenbinding domain comprises SEQ ID NO: 136
- the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- the first antigen-binding domain consists of SEQ ID NO: 136
- the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
- any of the multi-specific binding agents disclosed herein are modified to reduce or eliminate the formation of pyroglutamic acid at the N-terminus of the modified multi-specific binding agents as compared to the unmodified multi-specific binding agents of this disclosure.
- the glutamate residue (E) or glutamine (Q) residue at the first position is modified to an aspartic acid residue (D).
- any of the multi-specific binding agents of the present disclosure may comprise an aspartic acid (D) residue in the first position.
- the Nectin-4 binding agent, or multi-specific binding agent comprising the same comprises an aspartic acid or a glutamic acid residue at the N-terminal amino acid position and elutes earlier in reversed-phase HPLC as described in Example 15, than a Nectin-4 binding agent or multi-specific binding agent comprising the same that comprises a pyroglutamate residue at the N-terminal amino acid position.
- the V52 binding agent, or multi-specific binding agent comprising the same comprises an aspartic acid or a glutamic acid residue at the N-terminal amino acid position and elutes earlier in reversed-phase HPLC as described in Example 15, than a Nectin-4 binding agent or multi-specific binding agent comprising the same that comprises a pyroglutamate residue at the N-terminal amino acid position.
- the second antigen-binding domain specifically binds to human Vy9.
- the multi-specific binding agents provided herein are capable of binding the Vy9 chain of a Vy9V52-TCR. “Capable of binding the Vy9 chain of a Vy9V52-TCR” means that the binding agent disclosed herein or multi-specific binding agent comprising the same can bind the Vy9 chain as a separate molecule and/or as part of a Vy9V52-TCR. However, the binding agent or multi-specific binding agent comprising the same will not bind to the V52 chain as a separate molecule.
- human Vy9 when used herein, refers to the rearranged Vy9 chain of the Vy9V52-T cell receptor (TCR).
- TCR Vy9V52-T cell receptor
- UniProtKB - Q99603 gives an example of a variable Vy9 sequence.
- Exemplary Vy9V52 TCR antigen-binding domain sequences are known in the art, see e.g. WO 2015/156673.
- the multi-specific binding agents provided herein are able to active Vy9V52-T cells.
- “Able to activate Vy9V52-T cells” in the context of the present disclosure refers to activation of Vy9V52-T cells in the presence of a multi-specific binding agent, such as a bispecific binding agent, of the disclosure in the presence of a target cell expressing Nectin-4.
- the activation of the Vy9V52-T cells is measurable through gene-expression and/or (surface) marker expression (e.g., activation markers, such as CD25, CD69, or CD107a) and/or secretory protein (e.g., cytokines or chemokines) profiles.
- the multispecific binding agent is able to induce activation (e.g. upregulation of CD69 and/or CD25 expression) resulting in degranulation (marked by an increase in CD107a expression; see e.g. Fig. 7A) and cytokine production (e.g. TNF, IFN-y) by Vy9V52-T cells.
- the multispecific binding agent that is used is able to increase CD107a expression on Vy9V52-T cells to at least 10%, more preferably at least 20%, more preferably at least 40%, most preferably at least 90%, when used in an assay as described in Example 10 herein, wherein e.g. 10% means that 10% of the total number of cells is positive for CD107a.
- the number of cells positive for CD107a is increased 1.5-fold, such as 2-fold, e.g. 5-fold, in the presence of a multi-specific binding agent of the disclosure.
- the present disclosure provides a Nectin-4 binding agent or multispecific binding agent comprising the same, further comprising an Fc domain.
- the Fc domain comprises a first and a second Fc domain monomer.
- Fc domain or “Fc region” describes the minimum region (in the context of a larger polypeptide) or smallest protein folded structure (in the context of an isolated protein) that can bind to or be bound by an Fc receptor (FcR).
- the Fc domain is the fragment of an antibody which would be typically generated after digestion with papain, and generally includes the two CH2-CH3 regions of an immunoglobulin and a hinge region.
- Fc domain monomer describes the single chain protein that, when associated with another Fc domain monomer, forms a functional Fc domain. The association of two Fc domain monomers creates one Fc domain. When two Fc domain monomers associate, the resulting Fc domain has Fc receptor binding activity.
- an Fc domain is a dimeric structure that can bind an Fc receptor.
- references herein to an “Fc domain” are to be understood as referring to a dimeric Fc domain, in which each Fc domain monomer comprises the referenced mutation.
- the Fc domain mediates the effector functions of antibodies with cell surface receptors called Fc receptors and proteins of the complement system.
- Fc domain as used herein includes the polypeptides comprising the constant region of an antibody excluding the first constant region immunoglobulin domain.
- Fc domain refers to the last two constant region immunoglobulin domains (CH2, CH3) of IgG and optionally the flexible hinge N-terminal to these domains.
- all references to amino acid positions in Fc domains and Fc domain monomers are according to the EU index as set forth in Kabat (1991 , NIH Publication 91-3242, National Technical Information Service, Springfield, Va.).
- polymorphisms have been observed at a number of Fc domain positions, including but not limited to Kabat 270, 272, 312, 315, 356, and 358, and thus slight differences between the sequences provided herein and sequences in the art may exist.
- the Fc domain may be derived from any of a variety of different antibody isotypes, including but not limited to, a wild-type or modified lgG1 , lgG2, lgG3, lgG4. IgA, IgE, or IgM. In some embodiments, the Fc domain is derived from a human lgG1.
- the DEL polymorph comprises the amino acids D-E-L at positions 356, 357, and 358, respectively (e.g., SEQ ID NO: 220).
- the EEM polymorph comprises the amino acids E-E-M at positions 356, 357, and 358, respectively (e.g., SEQ ID NO: 219).
- Two binding agents that are otherwise identical except for the presence of a DEL Fc domain or an EEM Fc domain are expected to demonstrate similar properties in terms of ligand binding and therapeutic efficacy.
- the Fc domain is a DEL Fc domain.
- the Fc domain is an EEM Fc domain.
- the Fc domain is a variant Fc domain that forms a variant Fc domain with a desirable property, such as increased half-life, compared to naturally occurring (wild-type) Fc sequences.
- a “variant Fc domain” refers to a non-naturally occurring Fc domain, for example an Fc domain comprising one or more non-naturally occurring amino acid residues, one or more amino acid substitutions relative to a wild-type human constant domain, or one or more amino acid deletion, addition and/or modification.
- the serum half-life of binding agents comprising Fc domains may be increased by increasing the binding affinity of the Fc domain for FcRn.
- the Fc domain variant has enhanced serum half-life relative to a comparable molecule.
- the Fc domain variant comprises at least one amino acid substitution at one or more positions selected from the group consisting of M252Y, S254T and T256E (referred to herein as “YTE”; e.g., SEQ ID NO: 221 and 222).
- YTE amino acid substitution at one or more positions selected from the group consisting of M252Y, S254T and T256E
- the Fc domain variant comprises a Y at position 252 (referred to herein as “Y”, e.g., SEQ ID NO: 223 and 224).
- the Fc domain variant may comprise a non-naturally occurring amino acid residue at additional and/or alternative positions known to one skilled in the art (see, e.g., U.S. Pat. Nos. 5,624,821 ; 6,277,375; 6,737,056; PCT Patent Publications WO 01/58957; WO 02/06919; WO 04/016750; WO 04/029207; WO 04/035752; WO 04/074455; WO 04/099249; WO 04/063351 ; WO 05/070963; WO 05/040217, WO 05/092925, and WO 06/020114).
- Examples for means to extend serum half-life of the binding agents of the disclosure include peptides, proteins or domains of proteins, which are fused or otherwise attached to the binding agents.
- the group of peptides, proteins or protein domains includes peptides binding to other proteins with preferred pharmacokinetic profile in the human body such as serum albumin (see WO 2009/127691).
- serum albumin refers to the albumin protein present in human blood plasma. Human serum albumin is the most abundant protein in the blood. It constitutes about half of the blood serum protein.
- a human serum albumin has the sequence of UniProt ID NO: P02768.
- An alternative concept of such half-life extending peptides includes peptides binding to the neonatal Fc receptor (FcRn, see WO 2007/098420), which can also be used in the polypeptides and binding agents of the present disclosure.
- the concept of attaching larger domains of proteins or complete proteins includes e.g. the fusion of human serum albumin, variants or mutants of human serum albumin (see WO 2011/051489, WO 2012/059486, WO 2012/150319, WO 2013/135896, WO 2014/072481 , WO 2013/075066) or domains thereof as well as the fusion of constant region of immunoglobulins (Fc domains) and variants thereof, as described herein.
- Such variants of Fc domains may be optimized/modified in order to allow the desired pairing of dimers or multimers, to abolish Fc receptor binding (e.g., the Fey receptor), to enhance binding to FcRn, or for other reasons.
- Fc receptor binding e.g., the Fey receptor
- a further concept known in the art to extend the half-life of small protein compounds in the human body is the pegylation of those compounds such as the polypeptide or binding agent of the present disclosure.
- the Fc domain monomer allows assembly of two or more polypeptide chains in a covalent manner, for example by disulfide linking between cysteine residues.
- the Fc domain monomer acts as a dimerization domain, allowing assembly of two polypeptide chains to form a dimer.
- such dimers comprise two polypeptides, each polypeptide including an antigen-binding domain described herein linked to an Fc domain monomer, thereby forming a bivalent binding agent.
- such dimers comprise two polypeptides, one polypeptide comprising an antigen-binding domain described herein linked to an Fc domain monomer, and one polypeptide comprising an Fc domain monomer, thereby forming a monovalent binding agent.
- the Fc domain may be a heterodimer comprising two Fc monomers, wherein the first antigen-binding domain is fused to the first Fc monomer and the second antigen-binding domain is fused to the second Fc monomer and wherein the first and second Fc monomers comprise asymmetric amino acid mutations that favor the formation of heterodimers over the formation of homodimers (see e.g., Ridgway et al. (1996) 'Knobs-into-holes' engineering of antibody CH3 domains for heavy chain heterodimerization. Protein Eng 9:617).
- the CH3 regions of the Fc monomers may comprise said asymmetric amino acid mutations, for example the first Fc polypeptide may comprise a T366W substitution, and the second Fc polypeptide may comprise T366S, L368A and Y407V substitutions, or vice versa, wherein the amino acid positions correspond to human lgG1 according to the EU numbering system.
- the cysteine residues at position 220 in the first and second Fc polypeptides may have been deleted or substituted, wherein the amino acid position corresponds to human lgG1 according to the EU numbering system.
- the first and/or second Fc monomers may contain mutations that render the antibody inert, i.e. unable to, or having reduced ability to, mediate Fc effector functions (e.g., Fc- mediated cross-linking of FcRs).
- the inert Fc domain may in addition not be able to bind C1 q and/or one or more Fc receptors.
- the first and second Fc monomers may comprise a mutation at position 234 and/or 235, for example the first and second Fc monomer may comprise an L234F and an L235E substitution, wherein the amino acid positions correspond to human lgG1 according to the EU numbering system.
- the first and second Fc monomers may comprise an L234A and L235A substitution.
- the first and second Fc domain monomers may further comprise a P329G substitution and/or a D265A substitution.
- Fc domain monomer sequences are shown in TABLE 7. Hinge sequences are shown in bold and italicized text; DEL and EEM polymorphisms are shown in boxed text; mutations relative to WT IgG 1 are shown in bold and underlined text.
- the Fc domains described in Table 7 comprise a wild type lgG1 hinge (e.g., SEQ ID NO: 232 - EPKSDKTHTCPPCP). In some embodiments, the Fc domains described in Table 7 comprise a modified lgG1 hinge (e.g., SEQ ID NO: 233 - AAASDKTHTCPPCP). In some embodiments, the Fc domain sequences may further comprise a lysine (K) residue at the C terminus.
- K lysine
- the multi-specific binding agents disclosed herein comprise one or more linkers.
- linker refers to a short stretch of amino acids used to connect two functional domains (e.g., antigen-binding domains or Fc domains) together in a polypeptide chain.
- the antigen-binding domains are linked together on a polypeptide chain via one or more peptide linkers.
- Peptide linkers can also be used to attach other domains (such as half-life extension domains) to the multi-specific binding agents of the disclosure.
- Suitable linkers are known in the art and include, for example, peptide linkers containing flexible amino acid residues such as glycine, alanine, and serine.
- a linker can contain motifs, e.g., multiple or repeating motifs, of GA, GS, GG, GGA, GGS, GGG, GGGA (SEQ ID NO: 250), GGGS (SEQ ID NO: 251), GGGG (SEQ ID NO: 252), GGGGA (SEQ ID NO: 253), GGGGS (SEQ ID NO: 254), GGGGG (SEQ ID NO: 255), GGAG (SEQ ID NO: 256), GGSG (SEQ ID NO: 257), AGGG (SEQ ID NO: 258), or SGGG (SEQ ID NO: 259).
- motifs e.g., multiple or repeating motifs, of GA, GS, GG, GGA, GGS, GGG, GGGA (SEQ ID NO: 250), GGGS (
- the present disclosure provides a polynucleotide encoding any one of the Nectin-4 binding agents described herein.
- the polynucleotide encodes a polypeptide sequence having at least about any one of 85%, 86%, 87%, 88%, 89%, 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100% sequence identity to a polynucleotide selected from the group consisting of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
- sequence similarity or identity may be determined using the local sequence identity algorithm of Smith & Waterman, Adv. Appl. Math. 2, 482 (1981), by the sequence identity alignment algorithm of Needleman & Wunsch J Mol. Biol. 48, 443 (1970), by the search for similarity method of Pearson & Lipman, Proc. Natl. Acad. Sci.
- WU- BLAST-2 uses several search parameters, which are optionally set to the default values.
- the parameters are dynamic values and are established by the program itself depending upon the composition of the particular sequence and composition of the particular database against which the sequence of interest is being searched; however, the values may be adjusted to increase sensitivity.
- an additional useful algorithm is gapped BLAST as reported by Altschul et al, (1997) Nucleic Acids Res. 25, 3389-3402. Unless otherwise indicated, percent identity is determined herein using the algorithm available at the internet address: blast.ncbi.nlm.nih.gov/Blast.cgi.
- polynucleotide sequences described herein have been codon- optimized for improved expression. Without wishing to be bound by theory, it is believed that codon optimization of the nucleotide sequence increases the translation efficiency of the mRNA transcripts. Codon optimization of the nucleotide sequence may involve substituting a native codon for another codon that encodes the same amino acid, but can be translated by tRNA that is more readily available within a cell, thus increasing translation efficiency. Optimization of the nucleotide sequence may also reduce secondary mRNA structures that would interfere with translation, thus increasing translation efficiency.
- the polynucleotides provided by the present disclosure may be not naturally occurring or may have a sequence that is made by an artificial combination of two otherwise separated segments of sequence. This artificial combination is often accomplished by chemical synthesis or, more commonly, by the artificial manipulation of isolated segments of nucleic acids, e.g., by genetic engineering techniques, such as those described in Sambrook et al., supra.
- the nucleic acids can be constructed based on chemical synthesis and/or enzymatic ligation reactions using procedures known in the art. See, for example, Sambrook et al., supra, and Ausubel et al. supra.
- a nucleic acid can be chemically synthesized using naturally occurring nucleotides or variously modified nucleotides designed to increase the biological stability of the molecules or to increase the physical stability of the duplex formed upon hybridization (e.g., phosphorothioate derivatives and acridine substituted nucleotides).
- modified nucleotides that can be used to generate the nucleic acids include, but are not limited to, 5-flurouracil, 5-bromouracil, 5- chlorouracil, 5-iodouracil, hypoxanthine, xanthine, 4-acetylcytosine, 5-(carboxyhydroxymethyl) uracil, 5-carboxymethylaminomethyl-2 -thiouridine, 5-carboxymethylaminomethyluracil, dihydrouracil, beta-D-galactosylqueosine, inosine, N6-isopenenyladenine, 1-methylguanine, 1- methylinosine, 2,2-dimethylguanine, 2-methyladenine, 2-methylguanine, 3-methylcytosine, 5- methylcytosine, N6-substituted adenine, 7-methylguanine, 5-methylaminomethyluracil, 5- methoxyaminomethyl-2-thiouracil, beta-D-mannosylqueo
- the polynucleotides described herein comprise a nucleic acid sequence encoding a signal peptide at the 5’ end of the nucleic acid sequence encoding the binding agents described herein.
- the signal peptide facilitates secretion of the encoded protein from a host cell (e.g., secretion of the Nectin-4 binding agents or multi-specific binding agents comprising the same).
- a host cell e.g., secretion of the Nectin-4 binding agents or multi-specific binding agents comprising the same.
- signal peptides are cleaved during intracellular transport such that the mature proteins do not express the signal peptide.
- Signal peptides suitable for use according to the present disclosure are known in the art, for example signal peptides derived from GMCSF, the IgK -chain, CD8a, CD33, or TPA.
- the present disclosure provides a vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same.
- the vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is a viral vector.
- viral vectors include, but are not limited to, adeno- associated virus (AAV), retrovirus (e.g., lentivirus), herpes simplex virus, adenovirus, and vaccinia virus.
- AAV (rAAV) vectors are typically composed of, at a minimum, a transgene and its regulatory sequences, and 5' and 3' AAV inverted terminal repeats (ITRs).
- the rAAV comprises ITRs and capsid sequences isolated from AAV1 , AAV2, AAV3, AAV4, AAV5, AAV6, AAV7, AAV8, AAV9, or AAV10.
- the ITR sequences of one AAV serotype and the capsid sequences of a different AAV serotype may be used to create a chimeric rAAV.
- engineering and selection methods can be applied to AAV capsids to make them more likely to transduce cells of interest. Construction of rAAV vectors, production, and purification thereof have been disclosed, e.g., in U.S. Patent Nos. 9,169,494; 9,169,492; 9,012,224; 8,889,641 ; 8,809,058; and 8,784,799, each of which is incorporated by reference herein, in its entirety.
- Illustrative retroviruses suitable for use in particular embodiments include, but are not limited to: Moloney murine leukemia virus (M-MuLV), Moloney murine sarcoma virus (MoMSV), Harvey murine sarcoma virus (HaMuSV), murine mammary tumor virus (MuMTV), gibbon ape leukemia virus (GaLV), feline leukemia virus (FLV), spumavirus, Friend murine leukemia virus, Murine Stem Cell Virus (MSCV) and Rous Sarcoma Virus (RSV)) and lentivirus.
- M-MuLV Moloney murine leukemia virus
- MoMSV Moloney murine sarcoma virus
- HaMuSV Harvey murine sarcoma virus
- MuMTV murine mammary tumor virus
- GaLV gibbon ape leukemia virus
- FLV feline leukemia virus
- RSV Rous Sarcoma Virus
- Illustrative lentiviruses include, but are not limited to, HIV (human immunodeficiency virus; including HIV type 1 , and HIV type 2); visna-maedi virus (VMV) virus; the caprine arthritis-encephalitis virus (CAEV); equine infectious anemia virus (EIAV); feline immunodeficiency virus (FIV); bovine immune deficiency virus (BIV); and simian immunodeficiency virus (SIV).
- HIV human immunodeficiency virus
- VMV visna-maedi virus
- CAEV caprine arthritis-encephalitis virus
- EIAV equine infectious anemia virus
- FV feline immunodeficiency virus
- BIV bovine immune deficiency virus
- SIV simian immunodeficiency virus
- a lentiviral vector contemplated herein comprises one or more LTRs, and one or more of the following accessory elements: a cPPT/FLAP, a Psi packaging signal, an export element, polyA sequences, and may optionally comprise a WPRE or HPRE, an insulator element, a selectable marker, and a cell suicide gene.
- lentiviral vectors contemplated herein may be integrative or non-integrating or integration defective lentivirus (e.g., having an integrase that lacks the capacity to integrate the viral genome into the genome of the host cells. Integrationincompetent viral vectors have been described in patent application WO 2006/010834, which is herein incorporated by reference in its entirety.
- expression of heterologous sequences in viral vectors is increased by incorporating post-transcriptional regulatory elements, efficient polyadenylation sites, and optionally, transcription termination signals into the vectors.
- posttranscriptional regulatory elements can increase expression of a heterologous polynucleotide at the protein, e.g., woodchuck hepatitis vims posttranscriptional regulatory element (WPRE; Zufferey et al., 1999, J. Virol., 73:2886); the posttranscriptional regulatory element present in hepatitis B vims (HPRE) (Huang el al, Mol. Cell. Biol., 5:3864); and the like (Liu el al, 1995, Genes Dev., 9: 1766).
- WPRE woodchuck hepatitis vims posttranscriptional regulatory element
- HPRE posttranscriptional regulatory element present in hepatitis B vims
- the vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same described herein is a plasmid.
- plasmid expression vectors are known to those of skill in the art, and many are commercially available. The following vectors are provided by way of example; for eukaryotic host cells: pXT1 , pSG5 (Stratagene), pSVK3, pBPV, pMSG, and pSVLSV40 (Pharmacia).
- any other plasmid vector may be used so long as it is compatible with the host cell.
- any of a number of suitable transcription and translation control elements including constitutive and inducible promoters, transcription enhancer elements, transcription terminators, etc. may be used in the expression vector (see e.g., Bitter et al. (1987) Methods in Enzymology, 153:516-544).
- a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to a control element, e.g., a transcriptional control element, such as a promoter.
- a control element e.g., a transcriptional control element, such as a promoter.
- the transcriptional control element may be functional in either a eukaryotic cell (e.g., a mammalian cell) or a prokaryotic cell (e.g., bacterial or archaeal cell).
- a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to multiple control elements that allow expression of the polynucleotide in both prokaryotic and eukaryotic cells.
- control elements any of a number of suitable transcription and translation control elements, including constitutive and inducible promoters, transcription enhancer elements, transcription terminators, etc. may be used in the expression vector (see e.g., Bitter et al. (1987) Methods in Enzymology, 153:516-544).
- Non-limiting examples of suitable eukaryotic promoters include those from cytomegalovirus (CMV) immediate early, herpes simplex virus (HSV) thymidine kinase, early and late SV40, long terminal repeats (LTRs) from retrovirus, and mouse metallothionein-l. Selection of the appropriate vector and promoter is well within the level of ordinary skill in the art.
- the expression vector may also contain a ribosome binding site for translation initiation and a transcription terminator.
- the expression vector may also include appropriate sequences for amplifying expression.
- the expression vector may also include nucleotide sequences encoding protein tags (e.g., 6xHis tag, hemagglutinin tag, green fluorescent protein, etc.) that are fused to the Nectin-4 binding agent or multi-specific binding agent comprising the same, thus resulting in a chimeric polypeptide.
- protein tags e.g., 6xHis tag, hemagglutinin tag, green fluorescent protein, etc.
- a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to an inducible or a constitutive promoter.
- Transfection methods include calcium phosphate co-precipitation (see, e.g., Graham et al., supra), direct micro injection into cultured cells (see, e.g., Capecchi, Cell, 22: 479-488 (1980)), electroporation (see, e.g., Shigekawa et al., BioTechniques, 6: 742-751 (1988)), liposome mediated gene transfer (see, e.g., Mannino et al., BioTechniques, 6: 682-690 (1988)), lipid mediated transduction (see, e.g., Feigner et al., Proc. Natl. Acad. Sci. USA, 84: 7413-7417 (1987)), and nucleic acid delivery using high velocity microprojectiles (see, e.g., Klein et al., Nature, 327: 70-73 (1987)).
- the vectors provided by the present disclosure can be prepared using standard techniques described in, for example, Sambrook et al., supra, and Ausubel et al., supra.
- Constructs of expression vectors which are circular or linear, can be prepared to contain a replication system functional in a prokaryotic or eukaryotic host cell, Replication systems can be derived, e.g., from ColEI, 2 plasmid, A, SV40, bovine papilloma virus, and the like.
- the vector may comprise regulatory sequences, such as transcription and translation initiation and termination codons, which are specific to the type of host cell (e.g., bacterium, fungus, plant, or animal) into which the vector is to be introduced, as appropriate, and taking into consideration whether the vector is DNA- or RNA-based.
- the expression vector may comprise restriction sites to facilitate cloning.
- the vector can include one or more marker genes, which allow for selection of transformed or transfected host cells.
- Marker genes include biocide resistance, e.g., resistance to antibiotics, heavy metals, etc., complementation in an auxotrophic host to provide prototrophy, and the like.
- Suitable marker genes for the inventive expression vectors include, for instance, neomycin/G418 resistance genes, hygromycin resistance genes, histidinol resistance genes, tetracycline resistance genes, and ampicillin resistance genes.
- the vectors can be designed for either transient expression, for stable expression, or for both, of the polynucleotides comprised therein. Also, the vectors can be made for constitutive expression or for inducible expression of the polynucleotides comprised therein.
- the present disclosure provides compositions comprising the Nectin-4 binding agents and/or multi-specific binding agents described herein. In some embodiments, the present disclosure provides pharmaceutical compositions comprising the Nectin-4 binding agents and/or multi-specific binding agents described herein and a pharmaceutically-acceptable excipient.
- formulations include all physiologically acceptable compositions including derivatives and/or prodrugs, solvates, stereoisomers, racemates, or tautomers thereof with any physiologically acceptable carriers, diluents, and/or excipients.
- a “therapeutic composition” or “pharmaceutical composition” is a composition capable of being administered to a subject for the treatment of a particular disease or disorder.
- phrases “pharmaceutically acceptable” is employed herein to refer to those compounds, materials, compositions, and/or dosage forms which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of human beings and animals without excessive toxicity, irritation, allergic response, or other problem or complication, commensurate with a reasonable benefit/risk ratio.
- pharmaceutically acceptable carrier includes without limitation any adjuvant, carrier, excipient, glidant, sweetening agent, diluent, preservative, dye/colorant, flavor enhancer, surfactant, wetting agent, dispersing agent, suspending agent, stabilizer, isotonic agent, solvent, surfactant, and/or emulsifier which has been approved by the United States Food and Drug Administration as being acceptable for use in humans and/or domestic animals.
- Exemplary pharmaceutically acceptable carriers include, but are not limited to, to sugars, such as lactose, glucose and sucrose; starches, such as corn starch and potato starch; cellulose, and its derivatives, such as sodium carboxymethyl cellulose, ethyl cellulose and cellulose acetate; tragacanth; malt; gelatin; talc; cocoa butter, waxes, animal and vegetable fats, paraffins, silicones, bentonites, silicic acid, zinc oxide; oils, such as peanut oil, cottonseed oil, safflower oil, sesame oil, olive oil, com oil and soybean oil; glycols, such as propylene glycol; polyols, such as glycerin, sorbitol, mannitol and polyethylene glycol; esters, such as ethyl oleate and ethyl laurate; agar; buffering agents, such as magnesium hydroxide and aluminum hydroxide; alginic acid; pyrogen- free
- “Pharmaceutically acceptable salt” includes both acid and base addition salts.
- Pharmaceutically-acceptable salts include the acid addition salts (formed with the free amino groups of the protein) and which are formed with inorganic acids such as, for example, hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, phosphoric acid and the like, and organic acids such as, but not limited to, acetic acid, 2,2-dichloroacetic acid, adipic acid, alginic acid, ascorbic acid, aspartic acid, benzenesulfonic acid, benzoic acid, 4-acetamidobenzoic acid, camphoric acid, camphor-10-sulfonic acid, capric acid, caproic acid, caprylic acid, carbonic acid, cinnamic acid, citric acid, cyclamic acid, dodecylsulfuric acid, ethane-1 ,2-disulfonic acid, ethanesulfonic acid, 2-hydroxyethan
- Salts formed with the free carboxyl groups can also be derived from inorganic bases such as, for example, sodium, potassium, lithium, ammonium, calcium, magnesium, iron, zinc, copper, manganese, aluminum salts and the like.
- Salts derived from organic bases include, but are not limited to, salts of primary, secondary, and tertiary amines, substituted amines including naturally occurring substituted amines, cyclic amines and basic ion exchange resins, such as ammonia, isopropylamine, trimethylamine, diethylamine, triethylamine, tripropylamine, diethanolamine, ethanolamine, deanol, 2-dimethylaminoethanol, 2- diethylaminoethanol, dicyclohexylamine, lysine, arginine, histidine, caffeine, procaine, hydrabamine, choline, betaine, benethamine, benzathine, ethylenediamine, glucosamine, methyl
- wetting agents such as sodium lauryl sulfate and magnesium stearate, as well as coloring agents, release agents, coating agents, sweetening, flavoring and perfuming agents, preservatives and antioxidants can also be present in the compositions.
- antioxidants examples include: (1) water soluble antioxidants, such as ascorbic acid, cysteine hydrochloride, sodium bisulfate, sodium metabisulfite, sodium sulfite and the like; (2) oil-soluble antioxidants, such as ascorbyl palmitate, butylated hydroxyanisole (BHA), butylated hydroxytoluene (BHT), lecithin, propyl gallate, alphatocopherol, and the like; and (3) metal chelating agents, such as citric acid, ethylenediamine tetraacetic acid (EDTA), sorbitol, tartaric acid, phosphoric acid, and the like.
- water soluble antioxidants such as ascorbic acid, cysteine hydrochloride, sodium bisulfate, sodium metabisulfite, sodium sulfite and the like
- oil-soluble antioxidants such as ascorbyl palmitate, butylated hydroxyanisole (BHA), butylated hydroxytoluene (BHT), lec
- the present disclosure provides a method of producing the Nectin- 4 binding agents and multi-specific binding agents comprising the same comprising introducing a polynucleotide encoding the Nectin-4 binding agent or a vector comprising the same into a host cell, culturing the host cell under conditions suitable for expression of the Nectin-4 binding agent, and purifying the expressed Nectin-4 binding agent from the culture supernatant.
- a host cell can be a eukaryotic cell, e.g., plant, animal, fungi, or algae, or can be a prokaryotic cell, e.g., bacteria or protozoa.
- the host cell can be a cultured cell or a primary cell, i.e., isolated directly from an organism, e.g., a human.
- the host cell can be an adherent cell or a suspended cell, i.e., a cell that grows in suspension.
- Suitable host cells are known in the art and include, for instance, DK5a E.
- the host cell may be a prokaryotic cell, e.g., a DH5a cell.
- the host cell may be a mammalian cell.
- the present disclosure provides a host cell comprising a polynucleotide described herein or vector comprising the same.
- Suitable methods of making antibodies, including single domain antibodies are known in the art. For instance, standard hybridoma methods are described in, e.g., Kohler and Milstein, Eur. J. Immunol. 5, 511-519 (1976), Harlow and Lane (eds.), Antibodies: A Laboratory Manual, CSH Press (1988), and C.A. Janeway et al. (eds,), Immumobiology, 5th Ed., Garland Publishing, New York, NY (2001). Alternatively, other methods, such as EBV-hybridoma methods (Haskard and Archer, J. Immunol.
- Antibodies can be produced by transgenic mice that are transgenic for specific heavy and light chain immunoglobulin genes. Such methods are known in the art and described in, for example U.S. Patents 5,545,806 and 5,569,825, and Janeway et al., supra.
- Multi-specific binding agents of the invention are typically produced recombinantly, i.e. by expression of polynucleotides encoding the multi-specific binding agents in suitable host cells, followed by purification of the produced recombinant multi-specific binding agent from the cell culture.
- Polynucleotides can be produced by standard molecular biological techniques well-known in the art.
- the polynucleotides are typically introduced into the host cell using an expression vector. Suitable nucleic acid constructs and expression vectors are known in the art.
- Host cells suitable for the recombinant expression of antibodies are well-known in the art, and include CHO (Chinese Hamster Ovary), HEK-293, Expi293F, PER-C6, NS/0 and Sp2/0 cells.
- the invention relates to a polynucleotide encoding a binding agent of the invention, such as multi-specific binding agent according to the invention.
- the polynucleotide is a DNA construct.
- the polynucleotide is an RNA construct.
- the polynucleotide typically further comprises a promoter.
- the invention relates to an expression vector comprising a polynucleotide encoding a multi-specific binding agent according to the invention.
- the expression vector typically further comprises a promoter.
- the invention relates to a host cell, such as a non-human host cell, for example a CHO cell, comprising one or more polynucleotides encoding a multi-specific binding agent according to the invention or an expression vector comprising a polynucleotide encoding a multi-specific binding agent according to the invention.
- a host cell such as a non-human host cell, for example a CHO cell
- polynucleotides encoding a multi-specific binding agent according to the invention or an expression vector comprising a polynucleotide encoding a multi-specific binding agent according to the invention.
- the present disclosure provides a method of treating cancer in a subject in need thereof comprising administering a Nectin-4 binding agent described herein, a multi-specific binding agent comprising the same, or a composition comprising the same.
- treatment comprises delivering an effective amount of a Nectin-4 binding agent or multi-specific binding agent comprising the same, or a composition thereof, to a subject in need thereof.
- treating refers to the treatment of a cancer in a mammal, e.g., in a human, including (a) inhibiting the cancer, i.e., arresting cancer development or preventing cancer progression; (b) relieving the cancer, i.e., causing regression of the cancer state or relieving one or more symptoms of the cancer; and (c) curing the cancer, i.e., remission of one or more cancer symptoms.
- treatment may refer to a short-term (e.g., temporary and/or acute) and/or a long-term (e.g., sustained) reduction in one or more cancer symptoms.
- treatment results in an improvement or remediation of the symptoms of the cancer.
- the improvement is an observable or measurable improvement, or may be an improvement in the general feeling of well-being of the subject.
- an “effective amount” or “an amount effective to treat” refers to a dose that is adequate to prevent or treat cancer in an individual. In some embodiments, an effective amount is also one in which any toxic or detrimental effects of the antibody are outweighed by the therapeutically beneficial effects.
- the effective amount of a Nectin-4 binding agent or multi-specific binding agent, or a composition comprising the same administered to a particular subject will depend on a variety of factors, several of which will differ from patient to patient including the disorder being treated and the severity of the disorder; activity of the specific agent(s) employed; the age, body weight, general health, sex and diet of the patient; the timing of administration, route of administration; the duration of the treatment; the ability of the binding agent or multi-specific binding agent comprising the same to elicit a desired response in the individual; drugs used in combination; the judgment of the prescribing physician; and like factors known in the medical arts.
- the size of the dose will also be determined by the existence, nature, and extent of any adverse side- effects that might accompany the administration of a particular active, and the desired physiological effect. It will be appreciated by one of skill in the art that various diseases or disorders could require prolonged treatment involving multiple administrations, perhaps using various rounds of administration.
- the cancer can be any cancer, including any of acute lymphocytic cancer, acute myeloid leukemia (AML), alveolar rhabdomyosarcoma, B-cell chronic lymphoproliferative disorders, bladder cancer (e.g., bladder carcinoma), blastic plasmacytoid dendritic cell neoplasm, bone cancer, brain cancer (e.g., medulloblastoma), breast cancer, cancer of the anus, anal canal, or anorectum, cancer of the eye, cancer of the intrahepatic bile duct, cancer of the joints, cancer of the neck, gallbladder, or pleura, cancer of the nose, nasal cavity, or middle ear, cancer of the oral cavity, cancer of the vulva, chronic lymphocytic leukemia, chronic myeloid cancer, colon cancer, esophageal cancer, cervical cancer, fibrosarcoma, gastrointestinal carcinoid tumor, head and neck cancer (e.g., head and neck squamous cell carcinoma
- the cancer is a leukemia.
- the cancer is acute myeloid leukemia.
- the cancer is a head and neck cancer.
- the cancer is a bladder cancer.
- the bladder cancer is a urothelial cancer.
- the cancer is choriocarcinoma.
- the cancer is epidermoid carcinoma.
- the cancer is colorectal adenocarcinoma.
- the cancer is characterized by the expression of Nectin-4.
- the cancer is selected from metastatic colorectal cancer, clear cell renal cell cancer, glioblastoma multiforme, adenocarcinoma, squamous cell carcinoma, head & neck cancer, primary colorectal cancer, esophagus carcinoma, and urothelial cell carcinoma.
- the cancer is selected from bladder cancer (such as bladder urothelial cancer), breast cancer (such as triple negative breast cancer), renal cancer, prostate cancer, ovarian cancer, esophageal cancer, head and neck cancer, lung cancer, pancreatic cancer, gastric cancer, thyroid cancer, colorectal cancer, cholangiocarcinoma and uterine corpus endometrial carcinoma.
- Treatment refers to the administration of an effective amount of a binding agent or multi-specific binding agent comprising the same according to the present disclosure with the purpose of easing, ameliorating, arresting, eradicating (curing) or preventing symptoms or disease states.
- the subject may be a neonate, a juvenile, or an adult.
- Mammalian species that may be treated with the present methods include canines and felines; equines; bovines; ovines; etc. and primates, particularly humans.
- Animal models, particularly small mammals e.g. mice, rats, guinea pigs, hamsters, rabbits, etc. may be used for experimental investigations.
- the present disclosure provides methods of expanding Vy9V62 T cells comprising contacting the Vy9V62 T cells with a Nectin-4 binding agent described herein, a multi-specific binding agent comprising the same, or a composition comprising the same.
- the contacting is in vitro, in vivo, or ex vivo. Expansion of Vy9V52 T cells may be measured by any method known in the art (e.g., labeling with a suitable agent such as carboxyfluorescein succinimidyl ester followed by quantification of fluorescence by e.g., flow cytometry).
- Administration of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same can occur by injection, irrigation, inhalation, consumption, electro-osmosis, hemodialysis, iontophoresis, and other methods known in the art.
- administration route is local or systemic.
- administration route is intraarterial, intracranial, intradermal, intraduodenal, intramammary, intrameningeal, intraperitoneal, intrathecal, intratumoral, intravenous, intravitreal, ophthalmic, parenteral, spinal, subcutaneous, ureteral, urethral, vaginal, intramuscular, inhalation, oral, or intrauterine.
- the administration route is by infusion (e.g., continuous or bolus).
- infusion e.g., continuous or bolus
- methods for local administration that is, delivery to the site of injury or disease, include through an Ommaya reservoir, e.g. for intrathecal delivery (See e.g., US Patent Nos. 5,222,982 and 5,385,582, incorporated herein by reference); by bolus injection, e.g. by a syringe, e.g. into a joint; by continuous infusion, e.g. by cannulation, such as with convection (See e.g., US Patent Application Publication No.
- the administration route is by topical administration or direct injection.
- the binding agents described herein may be provided to the subject alone or with a suitable substrate or matrix.
- At least 0.01 pg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same is administered to a subject. In some embodiments, between about 0.01 pg/kg and about lOOmg/kg, between about 0.1 pg/kg and about 50 mg/kg, between about 0.01 mg/kg and about 20 mg/kg, or between about 0.01 mg/kg and about 10 mg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, is administered to a subject.
- At least about 0.01 mg/kg, at least about 0.03 mg/kg, at least about 0.05 mg/kg, at least about 0.1 mg/kg, about 0.3 mg/kg, about 0.5 mg/kg, about 1 mg/kg, about 3 mg/kg, about 5 mg/kg, about 8 mg/kg, or about 10 mg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, is administered to the subject.
- administration to the subject may be a one-time event.
- such treatment may require an on-going series of repeated treatments.
- multiple administrations may be required before an effect is observed.
- the exact protocols depend upon the disease or condition, the stage of the disease and parameters of the individual subject being treated.
- the effective amount of a Nectin-4 binding agent, a multi-specific binding agent comprising the same, or a composition comprising the same may be the amount required to result in at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or more fold decrease in tumor mass or volume, decrease in the number of tumor cells, or decrease in the number of metastases.
- the effective amount of a Nectin-4 binding agent, a multi-specific binding agent comprising the same, or a composition comprising the same may be the amount required to achieve an increase in life expectancy, an increase in progression-free or disease-free survival, or amelioration of various physiological symptoms associated with the disease being treated.
- the methods of treatment provided herein further comprise the administration of one or more additional therapeutic agents.
- the one or more additional therapeutic agents can be administered prior to, simultaneously with, or after the Nectin-4 binding agent or multi-specific binding agent comprising the same, or composition comprising the same described herein.
- the additional therapeutic agent is IL-2 or IL-15.
- the additional therapeutic agent is IL-2.
- the IL-2 is Aldesleukin/Proleukin.
- Other suitable forms of IL-2 include NKTR-214 (Bempegaldesleukin/Nektar), ALK 4230 (nemvaleukin/Aalkermes-Reliant), SAR444245 - THOR 707/Synthorx/Sanofi) and XTX-202 (Xilio).
- the IL-2 is a variant IL-2.
- the variant IL-2 binds to the IL-2Rbeta and gamma chains, but does not bind or demonstrates reduced/abrogated binding to the IL-2Ralpha chain (e.g. NL201 from Neoleukin, Silva et al. De novo design of potent and selective mimics of IL-2 and IL-15. Nature 565, 186-191 (2019), and MDNA11 from Medicenna).
- the IL-2 and/or variants thereof is pegylated.
- the additional therapeutic agent is IL-15.
- IL-15 Suitable forms of IL-15 are known in the art. See e.g., Int J Mol Sci. 2022 Jul; 23(13): 7311 , which is herein incorporated by reference in its entirety.
- the IL-15 is a heterodimer of IL-15 and IL-15 receptor alpha (hetlL-15), which is also referred to as NIZ985.
- the IL-15 is N-803, formerly known as ALT-803, which is an IL-15 variant complexed with a human IL-15Ra sushi domain-Fc fusion protein.
- the IL-15 is SOT101 , also referred to as Nanrilkefusp alfa, which is a human fusion protein comprising the cytokine IL-15 and the high- affinity binding sushi+ domain of IL-15 receptor alpha (IL-15Ra).
- the IL-15 is NKTR-255, which is a polyethylene glycol-conjugate of rhlL-15.
- the IL- 15 and/or variants thereof is pegylated.
- the present disclosure provides a multi-specific binding agent comprising a first antigen-binding domain that binds to Nectin-4 and a second antigen-binding domain that binds to V52.
- the first and second antigen-binding domains are comprised in the same polypeptide chain.
- the multi-specific binding agent comprises the following format, from N’ to C’ terminus: first antigen-binding domain - linker - second antigen-binding domain.
- the multi-specific binding agent comprises the following format, from N’ to C’ terminus: second antigen-binding domain - linker — first antigen-binding domain.
- the linker is a glycine-serine linker.
- the linker is G 4 S and comprises SEQ ID NO: 254.
- the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3.
- the first antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4.
- the first antigen-binding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 4.
- the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 4.
- the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 281.
- the multi-specific binding agent comprises SEQ ID NO: 281.
- the multi-specific binding agent consists of SEQ ID NO: 281.
- Such a multi-specific binding agent is referred to herein as LAVA-366.
- the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3.
- the first antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4.
- the first antigen-binding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 4.
- the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 4.
- the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 282.
- the multi-specific binding agent comprises SEQ ID NO: 282.
- the multi-specific binding agent consists of SEQ ID NO: 282.
- LAVA-367 Such a multi-specific binding agent is referred to herein as LAVA-367.
- the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3.
- the first antigenbinding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4.
- the first antigen-binding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 4.
- the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 4.
- the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 283.
- the multi-specific binding agent comprises SEQ ID NO: 283.
- the multi-specific binding agent consists of SEQ ID NO: 283.
- LAVA-368 Such a multi-specific binding agent is referred to herein as LAVA-368.
- the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3.
- the first antigenbinding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4.
- the first antigen-binding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 4.
- the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 4.
- the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 284.
- the multi-specific binding agent comprises SEQ ID NO: 284.
- the multi-specific binding agent consists of SEQ ID NO: 284.
- Such a multi-specific binding agent is referred to herein as LAVA-369.
- Table 8 Exemplary single chain multi-specific binding agents.
- the multi-specific binding agent further comprises one or more Fc domains.
- the multi-specific binding agent comprises a first and a second polypeptide, wherein the first polypeptide comprises a first antigen-binding domain that binds to Nectin-4 and a first Fc domain monomer, and wherein the second polypeptide comprises a second antigen-binding domain and a second Fc domain monomer.
- the Fc domain monomers associate to form a dimeric multi-specific binding agent.
- the Fc domain monomers comprise one or more mutations to facilitate dimerization and/or reduce effector function.
- first and second polypeptides are provided below in TABLE 9.
- Antigen-binding domains are shown in underlined text. Hinges are shown in italicized and bolded text.
- Fc domains are shown in regular text. For all of the Nectin-4 VHH - Fc fusion proteins, the Fc domain corresponds to SEQ ID NO: 229 or 231 (/.e., effector mutations + hole mutations, w/ or w/o a C-terminal lysine).
- the Fc domain corresponds to SEQ ID NO: 228 or 230 (/.e., effector mutations + knob mutations, w/ or w/o a C-terminal lysine).
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8.
- the first antigenbinding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 8.
- the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 8.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231.
- the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 270 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278.
- the first polypeptide comprises SEQ ID NO: 270 and the second polypeptide comprises SEQ ID NO: 278.
- the first polypeptide consists of SEQ ID NO: 270 and the second polypeptide consists of SEQ ID NO: 278.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 269 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277.
- the first polypeptide comprises SEQ ID NO: 269 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 269 and the second polypeptide consists of SEQ ID NO: 277.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8.
- the first antigenbinding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 8.
- the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 8.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231.
- the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 268 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278.
- the first polypeptide comprises SEQ ID NO: 268 and the second polypeptide comprises SEQ ID NO: 278.
- the first polypeptide consists of SEQ ID NO: 268, referred to herein as LAVA-387
- the second polypeptide consists of SEQ ID NO: 278, referred to herein as LAVA-349.
- LAVA-1387 Such a multi-specific binding agent is referred to herein as LAVA-1387.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 267 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277.
- the first polypeptide comprises SEQ ID NO: 267 and the second polypeptide comprises SEQ ID NO: 277.
- the first polypeptide consists of SEQ ID NO: 267 and the second polypeptide consists of SEQ ID NO: 277.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8.
- the first antigenbinding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 8.
- the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 8.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231.
- the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 272 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278.
- the first polypeptide comprises SEQ ID NO: 272 and the second polypeptide comprises SEQ ID NO: 278.
- the first polypeptide consists of SEQ ID NO: 278 and the second polypeptide consists of SEQ ID NO: 278.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 271 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277.
- the first polypeptide comprises SEQ ID NO: 271 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 271 and the second polypeptide consists of SEQ ID NO: 277.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8.
- the first antigenbinding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 8.
- the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 8.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231.
- the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 274 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278.
- the first polypeptide comprises SEQ ID NO: 274 and the second polypeptide comprises SEQ ID NO: 278.
- the first polypeptide consists of SEQ ID NO: 274 and the second polypeptide consists of SEQ ID NO: 278.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 273 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277.
- the first polypeptide comprises SEQ ID NO: 273 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 273 and the second polypeptide consists of SEQ ID NO: 277.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 99 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8.
- the first antigenbinding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 8.
- the first antigen-binding domain consists of SEQ ID NO: 99 and the second antigen-binding domain consists of SEQ ID NO: 8.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231.
- the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 276 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278.
- the first polypeptide comprises SEQ ID NO: 276 and the second polypeptide comprises SEQ ID NO: 278.
- the first polypeptide consists of SEQ ID NO: 276 and the second polypeptide consists of SEQ ID NO: 278.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 275 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277.
- the first polypeptide comprises SEQ ID NO: 275 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 275 and the second polypeptide consists of SEQ ID NO: 277.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22.
- the first antigenbinding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 270 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280.
- the first polypeptide comprises SEQ ID NO: 270 and the second polypeptide comprises SEQ ID NO: 280.
- the first polypeptide consists of SEQ ID NO: 270 and the second polypeptide consists of SEQ ID NO: 280.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 269 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279.
- the first polypeptide comprises SEQ ID NO: 269 and the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 269 and the second polypeptide consists of SEQ ID NO: 279.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22.
- the first antigenbinding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 268 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280.
- the first polypeptide comprises SEQ ID NO: 268 and the second polypeptide comprises SEQ ID NO: 280.
- the first polypeptide consists of SEQ ID NO: 268 and the second polypeptide consists of SEQ ID NO: 280.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 267 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279.
- the first polypeptide comprises SEQ ID NO: 267 and the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 267 and the second polypeptide consists of SEQ ID NO: 279.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22.
- the first antigenbinding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 272 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280.
- the first polypeptide comprises SEQ ID NO: 272 and the second polypeptide comprises SEQ ID NO: 280.
- the first polypeptide consists of SEQ ID NO: 272 and the second polypeptide consists of SEQ ID NO: 280.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 271 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279.
- the first polypeptide comprises SEQ ID NO: 271 and the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 271 and the second polypeptide consists of SEQ ID NO: 279.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22.
- the first antigenbinding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 274 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280.
- the first polypeptide comprises SEQ ID NO: 274 and the second polypeptide comprises SEQ ID NO: 280.
- the first polypeptide consists of SEQ ID NO: 274 and the second polypeptide consists of SEQ ID NO: 280.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 273 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279.
- the first polypeptide comprises SEQ ID NO: 273 and the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 273 and the second polypeptide consists of SEQ ID NO: 279.
- the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer.
- the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 99 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22.
- the first antigenbinding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 22.
- the first antigen-binding domain consists of SEQ ID NO: 99 and the second antigen-binding domain consists of SEQ ID NO: 22.
- the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231.
- the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 276 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280.
- the first polypeptide comprises SEQ ID NO: 276 and the second polypeptide comprises SEQ ID NO: 280.
- the first polypeptide consists of SEQ ID NO: 276, referred to herein as LAVA-427 and the second polypeptide consists of SEQ ID NO: 280, referred to herein as LAVA-448.
- LAVA-1427 Such a multi-specific binding agent is referred to herein as LAVA-1427.
- the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 275 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279.
- the first polypeptide comprises SEQ ID NO: 275 and the second polypeptide comprises SEQ ID NO: 279.
- the first polypeptide consists of SEQ ID NO: 275 and the second polypeptide consists of SEQ ID NO: 279.
- Lama glama (2 animals) were immunized with 4 injections of HepG2 cells (day 0, 14, 28 and 35) followed by 2 injections of human Nectin-4 protein (Sino Biologies) on days 49 and 63. Serum was collected before and after immunization and sera were tested for the presence of anti- Nectin-4 antibodies by ELISA.
- the purified cDNA and used as a template for a nested PCR that introduced an appropriate 5’ flanking restriction site and amplified only binding agent-encoding cDNA.
- the ligated library was transformed into TG1 E. coli by electroporation for display on filamentous bacteriophage. Two consecutive rounds of selection were performed, followed by screening single clones for binding to the recombinant captured antigen. Those clones that scored positive for binding were sequenced and a selection of clones having a different sequence were then tested for Nectin-4 binding by ELISA.
- LV1178 SEQ ID NO: 120
- LV1179 SEQ ID NO: 132
- LV1180 SEQ ID NO: 136
- LV1181 SEQ ID NO: 98
- LV1183 SEQ ID NO: 124
- LV1184 SEQ ID NO: 91
- LV1185 SEQ ID NO: 106
- LV1186 SEQ ID NO: 113
- LV1187 SEQ ID NO: 128).
- Example 2 Binding of Nectin-4 binding agents to human, cynomolgus monkey, and mouse Nectin-4
- Protein sequences of human (Uniprot number Q96NY8), cynomolgus monkey (Uniprot number A0A2K5WES1) and mouse (Uniprot number Q8R007) Nectin-4 were reverse-translated into cDNA and then codon-optimized for expression in human cells. Regulatory elements were added to each cDNA, namely an N-terminal Kozak sequence and C-terminal stop codon (including BamH1 and Age1 restriction sites for cloning) and the cDNA was made into a synthetic gene. cDNAs were then cloned into a suitable vector and the sequences were verified.
- Nectin-4 was confirmed using commercially available control antibodies (Nectin-4-AF647 [R&D systems] and Nectin-4 Antibody, anti-human, APC, REAfinity [Miltenyi]) in flow cytometry.
- FIG. 2A-FIG. 2D show that all the binding agents bound dose-dependently to human Nectin-4 expressing CHO-K1 cells, and did not bind to non-transfected CHO-K1 cells. Based on the strength of their binding, Nectin-4 binding agents were divided in three groups:
- Nectin-4 binding agents showed cross reactivity to CHO-K1 cells expressing cynomolgus monkey Nectin-4 (FIG. 3A-FIG. 3B). Again, the three groups of strong, intermediate, and weak binding of the Nectin-4 binding agents were observed. The Nectin-4 binding agents that had ‘strong binding’ and ‘weak binding’ also cross-reacted to murine Nectin-4. However, the Nectin-4 binding agents with ‘intermediate binding’ did not cross-react with murine Nectin-4 (FIG.
- the binders were further characterized .
- binding of the selected Nectin-4 binding agents to Nectin-4 endogenously expressed on human tumor cell lines was determined.
- Nectin-4 expression on tumor cell lines BeWo (Sigma), A-431 (ATCC), and HT-29 (ATCC) was confirmed using commercially available Nectin- 4 monoclonal antibodies (Nectin-4-AF647 [R&D systems] and Nectin-4 Antibody, anti-human, APC, REAfinity [Miltenyi]).
- the U251 cell line was used as a Nectin-4-negative cell line.
- FIG. 4A-FIG. 4F show that the LV1181 and LV1184 Nectin-4 binding agents had strong binding to Nectin-4 expressing tumor cells; the LV1185, LV1186, and LV1187 Nectin-4 binding agents showed less, but still detectable binding to Nectin-4 expressing tumor cells; and the LV1178, LV1179 and LV1180 Nectin-4 binding agents showed very limited binding to Nectin-4 expressing tumor cells.
- EC50s for the LV1181 and LV1184 Nectin-4 binding agents to BeWo (FIG. 4A-FIG. 4B), A431 (FIG. 4C-FIG. 4D) and HT-29 (FIG. 4E-FIG. 4F) cells were determined by curve fitting using GraphPad-Prism software and are shown in Table 10; EC50s for binding of the other Nectin-4 binding agents could not be determined due to incomplete binding curves.
- Table 10 EC50 values for the LV1181 and LV1184 Nectin-4 binding agents to tumor cells
- Example 4 Synthetic gene synthesis, production, and purification of Nectin-4xV52 multispecific binding agents
- Nectin-4 binding agents that showed strongest binding to tumor cells that endogenously express Nectin-4 (LV1181 , LV1184, LV1185, and LV1186) were then reformatted into multi-specific binding agents with a V52 binding agent (5C8) in the orientation: N’ Nectin-4 VHH - linker - V52 VHH C’.
- the linker between the two binding agent ‘heads’ was a glycine(G)-serine(S) stretch with the sequence G 4 S (SEQ ID NO: 254).
- Full amino acid IDs for these bispecific binding agents are provided below in Table 11.
- Table 11 Amino acid sequences of bispecific binding agents.
- the cDNAs encoding these proteins were made by synthetic gene assembly and cloned into a proprietary expression vector. HEK293E-253 cells were transiently transfected with the expression vectors to express the encoded proteins. After 6 days, the proteins were then purified from the conditioned cell culture supernatant using HiTrap Fibro PrismA columns according to the supplier’s protocol. After elution, proteins were buffer-exchanged to PBS. The purified proteins (Nectin-4 x V52 multi-specific binding agents) were always >95% pure as determined by SDS- PAGE analysis using Coomassie staining and contained very low levels of endotoxin ( ⁇ 0.5 EU/mg).
- Example 5 Affinity determination of the Nectin-4 binding agents and Nectin-4xV52 multispecific binding agents to human Nectin-4 using biolayer interferometry (BLI)
- the binding agents tested were LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187.
- the multi-specific binding agents tested were LV1181xV52, LV1184xV52, LV1185xV52, and LV1186xV52.
- Table 12 shows the binding affinities (KD) of the binding agents determined in 2 independent runs.
- Table 13 shows the kinetic parameters of binding of the Nectin-4xV52 multispecific binding agents for human Nectin-4 determined in 2 independent runs. ND means Not Determined
- Example 7 Binding of Nectin-4xV52 multi-specific binding agents to tumor cell lines [0240] Binding of the Nectin-4xV52 multi-specific binding agents to Nectin-4 endogenously expressed on human tumor cell lines A-431 and HT-29 was determined by flow cytometry as described above.
- FIG. 5A-FIG. 5B show that both the LV1181xV52 and the LV1184xV52 multi-specific binding agents bound to both cell lines with high affinity, whereas both the LV1185xV52 and the LV1186xV52 multi-specific binding agents bound to the tumor cell lines with lower affinity. See Table 15.
- Table 15 EC 5 o of Nectin-4xV52 multi-specific binding agents to Nectin-4-expressing cancer cells
- Example 8 PBMC isolation and generation of human donor-derived Vy9V52-T cell cultures
- Buffy coats were obtained from blood supply service Sanquin and used for isolation of peripheral blood mononuclear cells (PBMC).
- PBMC peripheral blood mononuclear cells
- PBMC peripheral blood mononuclear cells
- PBMC peripheral blood mononuclear cells
- Vy9V52-T cells were then isolated from healthy donor-derived PBMC by magnetic-activated cell sorting (MACS) using a FITC-labeled anti-TCR V52 mouse monoclonal antibody (Mab) in combination with goat anti-mouse IgG microbeads.
- MCS magnetic-activated cell sorting
- Vy9V52-T cells were stimulated every seven days with a feeder cell mix consisting of irradiated PBMC from two (other) healthy donors and an Epstein Barr Virus transformed B cell line (JY) resuspended in Roswell Park Memorial Institute (RPMI) medium supplemented with 10 lU/mL IL-7, 10 ng/mL IL- 15 and 50 ng/ml PHA. Expanded Vy9V52-T cell cultures between 12 and 15 days after the last stimulation and were tested for purity (and only used when >90% pure) before being used for experiments.
- Example 9 Binding of Nectin-4xV52 multi-specific binding agents to Vy9V52 T cells
- FIG. 6 shows that all 4 Nectin-4xV52 multispecific binding agents bound to Vy9V52 T cells with similar EC50s (See Table 15).
- Example 10 Vy9V52-T cell degranulation and cytotoxicity of A-431 cells induced by Nectin- 4xV52 multi-specific binding agents
- A-431 tumor target cells and Vy9V52 T cells were mixed in a 1 :1 ratio in culture medium with labeled anti-CD107a antibody. This mixture was seeded in 96-well culture plates (with 50,000 target/Vy9V52 T cells per well) and serial dilutions of Nectin-4xV52 multi-specific binding agents were added. Tumor cells and Vy9V52-T cells alone with, and without, the highest concentration of Nectin-4xV52 multi-specific binding agents were also prepared as controls.
- FACS plates After incubation for 24 hours at 37°C/5% CO 2 , cells were resuspended, washed, and transferred to 96-well U bottom FACS plates. Remaining adherent cells were detached using trypsin/0.5% EDTA, washed and transferred to the corresponding wells of the FACS plates. The plates were washed and the cells were resuspended in FACS buffer (PBS/1 % BSA) and incubated with labeled anti-CD3 (Biolegend) and anti-Vy9 (Beckman Coulter) antibodies for 30 minutes at 4°C. Cells were then washed and incubated with labeled-7-AAD. Staining was visualized using a FACS Celesta (Becton and Dickinson).
- FIG.7A-FIG. 7B show that all four Nectin-4xV52 multi-specific binding agents induced similar levels of Vy9V52 T cell degranulation as determined by CD107a expression on the T cells (FIG. 7A). Surprisingly, despite differences in binding to the tumor cells as described above (See Example 7), all four Nectin-4xV52 multi-specific binding agents induced the same level of lysis of A431 cells with similar EC50s (FIG. 7B).
- Example 11 Humanization of the anti-Nectin-4 binding agents
- the amino acid sequence of the llama-derived anti-Nectin-4 binding agents (LV1181 , LV1184, LV1185 and LV1186) were aligned to the human V gene database and the closest human germline match was found to be IGHV3-66*01. Based on sequence differences in the framework regions between the human and llama-derived sequence, for each anti-Nectin-4 VHH three humanized variants (SEQ ID NOs: 92, 93, 94, 100, 101 , 102, 107, 108, 109, 114, 115, and 116) were designed.
- FIG. 1A shows Nectin-4 expression on freshly isolated patient tumor samples.
- FIG. 8A and FIG. 8B shows the Nectin-4 expression of urothelial cell carcinoma (UCC) and non-malignant bladder tissue as measured by the mean fluorescence index (MFI) (FIG. 8A) and as the percentage of Nectin-4 positive cells in urothelial cell carcinoma and non-malignant tissue (FIG. 8B).
- UCC urothelial cell carcinoma
- MFI mean fluorescence index
- FIG. 8B Non-malignant tissue was taken by pathologist from part of the bladder without macroscopic tumor tissue.
- (m)CRC (metastatic) colorectal cancer
- ccRCC clear cell renal cell cancer
- GBM glioblastoma multiforme
- AC adenocarcinoma
- SCC squamous cell carcinoma
- H&N head & neck cancer
- UCC urothelial cell carcinoma.
- Nectin-4xV52 multi-specific binding agents induce Vy9V52T cell degranulation and tumor cell lysis in Nectin-4+ head and neck and bladder cancers.
- LAVA-366 comprises the LV1181 Nectin-4 VHH and the 5C8 V52 VHH and the LAVA-366 sequence comprises SEQ ID NO: 281. Control conditions without LAVA-366 were also included.
- FIG. 9A-FIG. 9B there was an increase in both Vy9V52 T cell degranulation (as measured by percent increase in CD107a expression (FIG. 9B)) and tumor cell lysis (FIG. 9A) in tumor sample with allogeneic Vy9V52 T cells in the presence of LAVA-366 as opposed to the tumor samples that were only incubated with allogeneic Vy9V52 T cells. Accordingly, in Nectin-4- tissue there was no tumor cell lysis, and only minimal T cell degranulation in the presence of allogeneic Vy9V52 T cells and LAVA-366.
- mice are inoculated with head and neck or urothelial cell carcinoma. The mice are then split into different groups: 1) further inoculation with Vy9V52-T cells; 2) further inoculation with Vy9V52-T cells + 0.1 mg/kg the LV1181 (E1 D) x 5C8 var1 (E1 D-105F-R109A) multi-specific binding agent (LAVA- 1427, comprising SEQ ID NOs: 276 and 280); 3) further inoculation with Vy9V52-T cells + 0.5 mg/kg LAVA-1427; 4) further inoculation with Vy9V52-T cells + 1 mg/kg LAVA-1427; 5) further inoculation with Vy9V52-T cells + 2 mg/kg LAVA-1427; 6) 0.1 mg/kg LAVA-1427; 7) 0.5 mg/kg LAVA-1427; 8) 1 mg/
- Example 15 Modifications to binding agents to prevent pyroglutamate formation
- LAVA-1387 black trace
- LAVA-1427 a significant part of LAVA-1387 (black trace) carries the N-terminal modification pyroglutamate seen as the peak in the hydrophobic region.
- the N-terminal aspartate as present in LAVA-1427 (gray trace) cannot undergo such a modification since ring formation is hampered by the shorter sidechains. Consequently, no hydrophobic pyroglutamation peak is detected for LAVA-1427.
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Abstract
Provided herein are Nectin-4 binding agents, multi-specific binding agents thereof, polynucleotides encoding the same, and compositions comprising the same. The present disclosure further provides methods of treating cancer in a subject in need thereof comprising administration of the Nectin-4 binding agents and multi-specific binding agents comprising the same to a subject in need thereof.
Description
NECTIN-4 BINDING AGENTS AND METHODS OF USE
CROSS- REFERENCE TO RELATED APPLICATIONS
[0001] The present application claims priority to U.S. Provisional Application 63/492,311 , filed March 27, 2023; and EP Application 23164347.9 filed March 27, 2023, and the contents of each are incorporated herein by reference in their entireties.
REFERENCE TO SEQUENCE LISTING
[0002] The contents of the text file submitted electronically herewith are incorporated herein by reference in their entirety: A computer readable format copy of the Sequence Listing (filename: LVAT_015_01 WO_SeqList_ST26.XML; date recorded: March 25, 2024; file size 264,665 bytes).
FIELD
[0003] The present disclosure provides Nectin-4 binding agents and multi-specific binding agents comprising the same. The present disclosure further provides methods of treating cancer in a subject in need thereof comprising administration of the Nectin-4 binding agents or multi-specific binding agents comprising the same to a subject in need thereof.
BACKGROUND
[0004] Nectin-4, also known as poliovirus receptor-like 4 (PVRL4), is a type 1 transmembrane 66 kDa polypeptide member of the Nectin family. In adults, human Nectin-4 is mainly expressed in the placenta with low expression in other tissues including the skin, bladder, salivary gland, esophagus, breast, stomach, prostate, lung, and trachea. Nectin-4 is involved in forming and maintaining adherens junctions together with cadherins and is a stimulatory co-receptor for the prolactin receptor (Heath and Rosenberg Nature Reviews Urology 18, 93-103 (2021).
[0005] Aberrant expression of Nectin-4 has been observed in several cancer types, including bladder, breast, lung, pancreatic and ovarian cancer. Nectin-4 has been associated with promoting cancer cell proliferation and metastasis via activation of WNT-p-catenin and Rac small G protein in the PI3K-AKT signaling pathway (Siddharth, S. et al. Int. J. Biochem. Cell Biol. 89, 85-94 (2017); Zhang et al. Hum. Pathol. 72:107-116 (2018). Nectin-4 also interacts with the tyrosine kinase receptor ERBB2 to promote its activation, resulting in stimulation of the PI3K-AKT signalling pathway (Kedashiro et al. Sci. Rep. 9, 18997 (2019).
[0006] Nectin-4 targeting antibodies have been described. Enfortumab vedotin is an anti-Nectin- 4 antibody linked to the cytotoxic agent monomethyl auristatin E approved for the treatment of urothelial cancer.
[0007] WO 2021/257525 (BioAtla) describes CD3-binding T-cell engaging antibodies that target Nectin-4. Bispecific T-cell engaging antibodies have a tumor target binding specificity and a CD3- directed T-cell binding specificity and thus boost efficacy by re-directing T-cell cytotoxicity to malignant cells, see e.g. Huehls et al. (2015) Immunol Cell Biol 93:290; Ellerman (2019) Methods, 154:102. However, results vary significantly. For example, in one study in which a CD3 binding moiety was combined with binding moieties against 8 different B-cell targets (CD20, CD22, CD24, CD37, CD70, CD79b, CD138 and HLA-DR), it was found that the bispecific antibodies targeting the different tumor targets showed strong variation in their capacity to induce target cell cytotoxicity and that cytotoxicity did not correlate with antigen expression levels. For example, CD3-based bispecific antibodies targeting HLA-DR or CD138 were not able to induce cytotoxicity, in spite of intermediate to high HLA-DR and CD138 expression levels (Engelberts et al. (2020) Ebiomedicine 52:102625). Few T-cell redirecting therapies have reached late-stage clinical development, possibly due to significant toxicity, manufacturing problems, immunogenicity, narrow therapeutic windows and low response rates. In particular, toxicity may occur when the T- cell engager includes a CD3 binding arm and results in uncontrolled and exaggerated immune activation and cytokine release.
SUMMARY
[0008] Thus, while significant progress has been made, there is still a need for novel Nectin-4 targeting agents, such as T-cell engaging Nectin-4 targeting binding agents, that are therapeutically effective against a range of (target) tumor cells yet have acceptable toxicity, as well as good stability, developability and manufacturability properties.
[0009] The present disclosure provides binding agents comprising a Nectin-4 antigen-binding domain. Such binding agents can target cancer cells that overexpress Nectin-4. The present disclosure further provides multi-specific binding agents comprising a Nectin-4 antigen-binding domain and a y5 T cell antigen-binding domain. In some embodiments, such multi-specific binding agents target the tumor cells to activated y5 T cells.
[0010] In some aspects disclosed herein is a single domain antibody that binds to Nectin-4 comprising: (a) a complementarity determining region (CDR)1 comprising an amino acid sequence selected from SEQ ID NOs: 88, 95, 103, 110, 117, 121 , 125, 129, and 133; (b) a CDR2 comprising an amino acid sequence selected from SEQ ID NOs: 89, 96, 104, 111 , 118, 122, 126, 130, and 134; and (c) a CDR3 comprising an amino acid sequence selected from 90, 97, 105, 112, 119, 123, 127, 131 , and 135. In some embodiments, the CDR1 , CDR2, and CDR3 sequences are selected from a combination disclosed in Table 1A. In some embodiments, the
single domain antibody comprises an amino acid sequence that is at least 90%, or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109,
113, 114, 115, 116, 120, 124, 128, 132, and 136. In some embodiments, the single domain antibody comprises SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113,
114, 115, 116, 120, 124, 128, 132, and 136. In some embodiments, the single domain antibody consists of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136. In some embodiments, the CDR1 comprises SEQ ID NO: 88, the CDR2 comprises SEQ ID NO: 89, and the CDR3 comprises SEQ ID NO: 90. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, and 94. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 91 , 92, 93, and 94. In some embodiments, the CDR1 comprises SEQ ID NO: 95, the CDR2 comprises SEQ ID NO: 96, and the CDR3 comprises SEQ ID NO: 97. In some embodiments, the single antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 98, 99, 100, 101 , and 102. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 98, 99, 100, 101 , and 102. In some embodiments, the CDR1 comprises SEQ ID NO: 103, the CDR2 comprises SEQ ID NO: 104, and the CDR3 comprises SEQ ID NO: 105. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 106, 107, 108, and 109. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 106, 107, 108, and 109. In some embodiments, the CDR1 comprises SEQ ID NO: 110, the CDR2 comprises SEQ ID NO: 111 , and the CDR3 comprises SEQ ID NO: 112. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 113, 114, 115, and 116. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of any one of SEQ ID NOs: 113, 114, 115, and 116. In some embodiments, the CDR1 comprises SEQ ID NO: 117, the CDR2 comprises SEQ ID NO: 118, and the CDR3 comprises SEQ ID NO: 119. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 120. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 120. In some embodiments, the CDR1 comprises SEQ ID NO: 121 , the CDR2 comprises SEQ ID NO: 122, and the CDR3 comprises SEQ ID NO: 123. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ
ID NO: 124. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 124. In some embodiments, the CDR1 comprises SEQ ID NO: 125, the CDR2 comprises SEQ ID NO: 126, and the CDR3 comprises SEQ ID NO: 127. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 128. In some embodiments, the single domain antibody comprises or consist of the amino acid sequence of SEQ ID NO: 128. In some embodiments, the CDR1 comprises SEQ ID NO: 129, the CDR2 comprises SEQ ID NO: 130, and the CDR3 comprises SEQ ID NO: 131. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 132. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 132. In some embodiments, the CDR1 comprises SEQ ID NO: 133, the CDR2 comprises SEQ ID NO: 134, and the CDR3 comprises SEQ ID NO: 135. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 136. In some embodiments, the single domain antibody comprises or consists of the amino acid sequence of SEQ ID NO: 136. In some embodiments, the CDR1 comprises SEQ ID NO: 95, CDR3 comprises SEQ ID NO: 96, and CDR3 comprises SEQ ID NO: 97. In some embodiments, the single domain antibody comprises an amino acid sequence that is at least 90%, or at least 95% identical to SEQ ID NO: 99. In some embodiments, the single domain antibody comprises SEQ ID NO: 99. In some embodiments, the single domain antibody consists of SEQ ID NO: 99.
[0011] In some aspects disclosed herein is a polynucleotide encoding the single domain antibody of any one of the above aspects or embodiments.
[0012] In some aspects disclosed herein is a vector comprising the polynucleotide of any one of the above aspects or embodiments.
[0013] In some aspects disclosed herein is a host cell comprising the polynucleotide of any one of the above aspects or embodiments or the vector of any one of the above aspects or embodiments.
[0014] In some aspects disclosed herein is a method of producing the single domain antibody of any one of the above aspects or embodiments, comprising: (a) introducing the vector of any one of the above aspects or embodiments into a host cell under conditions permitting expression of the polynucleotide encoding the single domain antibody; and (b) isolating the single domain antibody from the culture supernatant.
[0015] In some aspects disclosed herein is a composition comprising the single domain antibody of any one of the above aspects or embodiments and a pharmaceutically acceptable carrier.
[0016] In some aspects disclosed herein is a binding agent comprising the single domain antibody of any one of the above aspects or embodiments.
[0017] In some aspects disclosed herein is a multi-specific binding agent comprising: (a) a first antigen-binding domain that specifically binds to human Nectin-4; and comprises the single domain antibody of any one of the above aspects or embodiments; and (b) a second antigenbinding domain that specifically binds to an antigen expressed on an immune cell. In some embodiments, the second antigen-binding domain specifically binds to a target antigen selected from CD3, CD2, an a8 T cell receptor, a yb T cell receptor (e.g., V52 TCR or V61 TCR). In some embodiments, the first and second antigen-binding domains are present in the same polypeptide chain. In some embodiments, the first antigen-binding domain and second antigen-binding domain are covalently linked via a peptide linker. In some embodiments, the first and second antigen-binding domains are present on different polypeptide chains. In some embodiments, the multi-specific binding agent further comprises an Fc domain comprising a first and a second Fc domain monomer. In some embodiments, the multi-specific binding agent comprises: (a) a first polypeptide comprising the first antigen-binding domain that binds to a human Nectin-4 protein and the first Fc domain monomer; and (b) a second polypeptide comprising the second antigenbinding domain that binds to a human V52 T cell receptor and the second Fc domain monomer. In some embodiments, the human V52 T cell receptor is a Vy9V52 T cell receptor. In some embodiments, the antigen-binding domain that binds to the Vy9V52 T cell receptor comprises SEQ ID NO: 22. In some embodiments, the antigen-binding domain that binds to the Vy9V52 T cell receptor consists of SEQ ID NO: 22. In some embodiments, the multi-specific binding agent induces proliferation of Vy9V52 T cells. In some embodiments, the first and second Fc domain monomers comprise a mutation at position 234 and/or 235 according to the EU numbering system. In some embodiments, the first and second Fc domain monomers comprise an L234F and an L235E substitution. In some embodiments, the first Fc domain monomer comprises a T366W substitution, and the second Fc domain monomer comprises T366S, L368A and Y407V substitutions, or vice versa, according to the EU numbering system; and/or the cysteine residues at position 220 according to the EU numbering system in the first and second Fc domain monomers have been deleted or substituted.
[0018] In some aspects disclosed herein is a multi-specific binding agent comprising (a) a first antigen-binding domain that binds to human Nectin-4, where the first antigen-binding domain comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97; and (b) a second antigenbinding domain that binds to V52, where the second antigen-binding domain comprises a CDR1
comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first and second antigen-binding domains are comprised in the same polypeptide chain.
[0019] In some aspects disclosed herein is a multi-specific binding agent comprising (a) a first polypeptide comprising (i) a first antigen-binding domain that binds to a human Nectin-4 protein and comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97 and (ii) a first Fc domain monomer; (b) a second polypeptide comprising (i) a second antigen-binding domain that binds to a human V52 T cell receptor and comprises a CDR1 comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20 and (ii) a second Fc domain monomer. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 231 and the second Fc domain monomer comprises SEQ ID NO: 230. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 230 and the second Fc domain monomer comprises SEQ ID NO: 231. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 276. In some embodiments, the second antigen-binding domain comprises SEQ ID NO: 280. In some embodiments, (a) the first polypeptide comprises SEQ ID NO: 276; and (b) the second polypeptide comprises SEQ ID NO: 280.
[0020] In some aspects disclosed herein is a polynucleotide encoding the multi-specific binding agent of any one of the above aspects or embodiments.
[0021] In some aspects disclosed herein is an expression vector comprising the polynucleotide of any one of the above aspects or embodiments.
[0022] In some aspects disclosed herein is a host cell comprising the polynucleotide of any one of the above aspects or embodiments or the expression vector of any one of the above aspects or embodiments. In some embodiments, the cell is a CHO cell.
[0023] In some aspects disclosed herein is a method of producing the multi-specific binding agent of any one of the above aspects or embodiments, comprising culturing the host cell of any one of the above aspects or embodiments under conditions sufficient to express the multi-specific binding agent from the polynucleotide or expression vector therein and purifying the expressed multi-specific binding agent from the culture supernatant.
[0024] In some aspects disclosed herein is a pharmaceutical composition comprising the single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multi-specific binding agent of any one of the above aspects or embodiments, and a pharmaceutically-acceptable excipient.
[0025] In some aspects disclosed herein is a method of treating a cancer in a subject in need thereof, comprising administering to the subject the single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multi-specific binding agent of any one of the above aspects or embodiments, or the pharmaceutical composition of any one of the above aspects or embodiments. In some embodiments, the subject is human. In some embodiments, the subject is suffering from a bladder cancer, urothelial cell cancer, head and neck cancer, choriocarcinoma, epidermoid carcinoma, or colorectal adenocarcinoma.
[0026] In some aspects disclosed herein is a method of expanding Vy9V52+ T cells comprising contacting the Vy9V52+ T cells with single domain antibody of any one of the above aspects or embodiments, the binding agent of any one of the above aspects or embodiments, or the multispecific binding agent of any one of the above aspects or embodiments, or the pharmaceutical composition of any one of the above aspects or embodiments.
[0027] In some aspects disclosed herein is a method increasing the stability of a protein, wherein the protein is modified at the first position to a non-pyroglutamate forming amino acid. In some embodiments, the non-pyroglutamate forming amino acid is aspartic acid.
BRIEF DESCRIPTION OF THE FIGURES
[0028] FIG. 1A-FIG. 1B show the expression of Nectin-4 (FIG. 1A) and percentage of Vy9+V52+ cells out of total CD3+ T cells (FIG. 1 B) in different cancer tissues. (m)CRC = (metastatic) colorectal cancer; ccRCC = clear cell renal cell cancer; GBM = glioblastoma multiforme; AC = adenocarcinoma; SCC = squamous cell carcinoma; H&N = head & neck cancer; UCC = urothelial cell carcinoma.
[0029] FIG. 2A-FIG. 2D show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to CHO cells that were (FIG. 2A and FIG. 2C) and were not transfected (FIG. 2B and FIG 2D) with human Nectin-4.
[0030] FIG. 3A-FIG. 3D show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to cynomolgus Nectin-4-transfected CHO cells (FIG. 3A and FIG. 3B) or murine Nectin-4-transfected CHO cells (FIG. 3C and FIG. 3D).
[0031] FIG. 4A-FIG. 4H show the binding profile of LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187 binding agents to BeWo cells (FIG. 4A-FIG. 4B), A-431 cells (FIG. 4C-FIG.4D), HT-29 cells (FIG. 4E-FIG.4F), and U-251 cells (FIG. 4G-FIG.4H).
[0032] FIG. 5A-FIG. 5B show the binding profile of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm to A-431 cells (FIG. 5A) and HT-29 cells (FIG. 5B).
[0033] FIG. 6 shows the binding profile of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm to Vy9V52 T cells.
[0034] FIG. 7A-FIG. 7B show the Vy9V52 T cell degranulation (FIG. 7A) and cytotoxicity (FIG. 7B) in A-431 cells expressing Nectin-4 induced by increasing concentrations of multi-specific binding agents comprising LV1181 , LV1184, LV1185, or LV1186 with a V52-binding arm in the presence or absence of Vy9V52 T cells.
[0035] FIG. 8A-FIG 8B show the expression of Nectin-4 in malignant urothelial cell carcinoma (UCC) patient tissue and donor-matched non-malignant bladder tissue. FIG. 8A shows Nectin-4 expression as measured by the mean fluorescence intensity (MFI) as expressed by malignant (UCC) and non-malignant bladder tissue. FIG. 8B shows the percent Nectin-4 expression of malignant (UCC) and non-malignant bladder tissue.
[0036] FIG. 9A-FIG. 9B show the percent tumor lysis (FIG. 9A) and Vy9V52 T cell degranulation (FIG. 9B) in head and neck and urothelial cell cancers and Nectin-4- tumors that are incubated with Vy9V52 T cells and with or without LAVA-366.
[0037] FIG. 10 shows the absence of tumor cell lysis when LAVA-366 is incubated with non- malignant Nectin-4+ urothelial tissue.
[0038] FIG. 11 shows the effect of LAVA-366 on tumor cell lysis of bladder cancers when incubated in the absence of additional expanded (allogeneic) Vy9V52-T cells.
[0039] FIG. 12 illustrates the different CDR numbering systems (Kabat, Chothia, IMGT, and Combined) for the 6H4 VHH.
[0040] FIG. 13 shows a chromatograph that illustrates the retention of pyroglutamate containing and non-pyroglutamate containing multi-specific binding agents in reverse-phase HPLC.
DETAILED DESCRIPTION
Overview
[0041] The present disclosure provides binding agents that specifically bind Nectin-4 and multispecific binding agents comprising the same, and methods of treating disorders (e.g., cancer) using the binding agents and/or multi-specific binding agents described herein.
Definitions
[0042] The terms used in this specification generally have their ordinary meaning in the art, within the context of this disclosure and in the specific context where each term is used. Certain terms are discussed below or elsewhere in the specification, to provide additional guidance to the practitioner in describing the compositions and methods of the disclosure and how to make and use them. The scope and meaning of any use of a term will be apparent from the specific context in which the term is used. As such, the definitions set forth herein are intended to provide illustrative guidance in ascertaining particular embodiments of the disclosure, without limitation to particular compositions or biological systems. All publications, patent applications, patents, GenBank or other accession numbers and other references mentioned herein are incorporated by reference in their entirety for all purposes.
[0043] The terms “a”, “an”, and “the” refer to “one or more” when used in this application, including the claims, unless clearly indicated otherwise.
[0044] The term “about” when referring to a measurable value such as an amount, a temporal duration, and the like, is meant to encompass variations of ±20% or in some instances ±10%, or in some instances ±5%, or in some instances ±1 %, or in some instances ±0.1% from the specified value, as such variations are appropriate to perform the disclosed methods.
[0045] As used herein, the terms “antibody” and “binding agent” are used interchangeably and refer to a polypeptide or complex of polypeptides comprising at least one antigen-binding domain that specifically binds to a target antigen and includes intact immunoglobulin molecules, antigenbinding fragments thereof, and derivatives of either. Binding agents, unless specified otherwise, also includes polyclonal antibodies, monoclonal antibodies (mAbs), chimeric antibodies and humanized antibodies, and antibody fragments provided by any known technique, such as enzymatic cleavage, peptide synthesis and recombinant techniques. In some embodiments a binding agent has the ability to specifically bind to an antigen under typical physiological conditions with a half-life of significant periods of time, such as at least about 30 minutes, at least about one hour, at least about two hours, at least about 8 hours, at least about 12 hours, about 24 hours or more, about 48 hours or more, about 3, 4, 5, 6, 7 or more days, etc., or any other relevant functionally-defined period (such as a time sufficient to induce, promote, enhance, and/or modulate a physiological response associated with binding agent binding to the antigen and/or time sufficient for the antibody or binding agent to recruit an effector).
[0046] As used herein, the term “multi-specific” refers to the capability of a binding agent described herein to specifically bind two or more different target antigens or to specifically bind two or more different epitopes on a target antigen.
[0047] Herein, the terms “multi-specific binding agent” and “multi-specific antibody” are used interchangeably and refer to a binding agent comprising two or more antigen-binding domains (e.g., two, three, four, or more), each binding to a different target antigen or to a different epitope on the same target antigen.
[0048] Herein, the terms “bispecific binding agent” and “bispecific antibody” are used interchangeably and refer to a binding agent comprising not more than two antigen-binding domains, each binding to a different target antigen or to a different epitope on the same target antigen.
[0049] Examples of different classes of bispecific binding agents include but are not limited to (i) IgG-like molecules with complementary CH3 domains to force heterodimerization; (ii) recombinant IgG-like dual targeting molecules, wherein the two sides of the molecule each contain the Fab fragment or part of the Fab fragment of at least two different antibodies; (iii) IgG fusion molecules, wherein full length IgG antibodies are fused to extra Fab fragment or parts of Fab fragment; (iv) Fc fusion molecules, wherein single chain Fv molecules or stabilized diabodies are fused to heavy-chain constant-domains, Fc regions, or parts thereof; (v) Fab fusion molecules, wherein different Fab fragments are fused together, fused to heavy-chain constant-domains, Fc regions or parts thereof; and (vi) scFv-and diabody-based and heavy chain-based antibodies (e.g., domain antibodies, Nanobodies®) wherein different single chain Fv molecules or different diabodies or different heavy-chain antibodies (e.g. domain antibodies, Nanobodies®) are fused to each other or to another protein or carrier molecule fused to heavy-chain constant-domains, Fc regions or parts thereof.
[0050] Examples of IgG-like molecules with complementary CH3 domains molecules include but are not limited to the Triomab® (Trion Pharma/Fresenius Biotech), the Knobs-into-Holes (Genentech), CrossMAbs (Roche) and the electrostatically-matched (Amgen, Chugai, Oncomed), the LUZ-Y (Genentech, Wranik et al. J. Biol. Chem. 2012, 287(52): 43331-9, doi: 10.1074/jbc.M112.397869. Epub 2012 Nov 1), DIG-body and PIG-body (Pharmabcine, WO2010134666, W02014081202), the Strand Exchange Engineered Domain body (SEEDbody)(EMD Serono), the Biclonics (Merus, WO2013157953), FcAAdp (Regeneron), bispecific lgG1 and lgG2 (Pfizer/Rinat), Azymetric scaffold (Zymeworks/Merck,), mAb-Fv (Xencor), bivalent bispecific antibodies (Roche, W02009080254) and DuoBody® molecules (Genmab).
[0051] Examples of recombinant IgG-like dual targeting molecules include, but are not limited to, Dual Targeting (DT)-lg (GSK/Domantis, W02009058383), Two-in-one Antibody (Genentech, Bostrom, et al 2009. Science 323, 1610-1614), Cross-linked Mabs (Karmanos Cancer Center),
mAb2 (F-Star), ZybodiesTM (Zyngenia, LaFleur et al. MAbs. 2013 Mar-Apr;5(2):208-18), approaches with common light chain, KABodies (Novlmmune, WO2012023053), US2020319181 (Merus) and CovX-body® (CovX/Pfizer, Doppalapudi, V.R., et al 2007. Bioorg. Med. Chem. Lett. 17,501-506).
[0052] Examples of IgG fusion molecules include but are not limited to Dual Variable Domain (DVD)-lg (Abbott), Dual domain double head antibodies (Unilever; Sanofi Aventis), IgG-like Bispecific (ImClone/Eli Lilly, Lewis et al. Nat Biotechnol. 2014 Feb;32(2):191-8), Ts2Ab (Medlmmune/AZ, Dimasi et al. J Mol Biol. 2009 Oct 30;393(3):672-92) and BsAb (Zymogenetics, W02010111625), HERCULES (Biogen Idee), scFv fusion (Novartis), scFv fusion (Changzhou Adam Biotech Inc) and TvAb (Roche).
[0053] Examples of Fc fusion molecules include but are not limited to scFv/Fc Fusions (Academic Institution, Pearce et al Biochem Mol Biol Int. 1997 Sep;42(6):1179), SCORPION (Emergent BioSolutions/Trubion, Blankenship JW, et al. AACR 100th Annual meeting 2009 (Abstract #5465); Zymogenetics/BMS, W02010111625), Dual Affinity Retargeting Technology (Fc-DARTTM) (MacroGenics) and Dual(ScFv)2-Fab (National Research Center for Antibody Medicine - China). [0054] Examples of Fab fusion bispecific antibodies include but are not limited to F(ab)2 (Medarex/AMGEN), Dual-Action or Bis-Fab (Genentech), Dock-and-Lock® (DNL) (ImmunoMedics), Bivalent Bispecific (Biotecnol) and Fab-Fv (UCB-Celltech).
[0055] Examples of scFv-, diabody-based and domain antibodies include but are not limited to Bispecific T Cell Engager (BiTE®) (Micromet, Tandem Diabody (Tandab) (Affimed), Dual Affinity Retargeting Technology (DARTTM) (MacroGenics), Single-chain Diabody (Academic, Lawrence FEBS Lett. 1998 Apr 3;425(3):479-84), TCR-like Antibodies (AIT, ReceptorLogics), Human Serum Albumin ScFv Fusion (Merrimack, WO2010059315) and COMBODY molecules (Epigen Biotech, Zhu et al. Immunol Cell Biol. 2010 Aug;88(6):667-75), dual targeting nanobodies® (Ablynx, Hmila et al., FASEB J. 2010), dual targeting heavy chain only domain antibodies.
[0056] The term “human Nectin-4”, when used herein, refers to the human Nectin-4 protein (UniProt Q96NY8 ■ NECT4_HUMAN). The sequence of human Nectin-4 is set forth in SEQ ID NO:265.
[0057] As used herein, the term “antigen-binding domain” or “antigen-binding region” refers to a portion of a binding agent that specifically binds a target antigen or target epitope. Antigen-binding domains may comprise variable regions of both the heavy and light chains of an antibody or antigen-binding fragments thereof, including single domain antibodies. Single-domain antibodies may contain only the variable domain of an immunoglobulin chain, i.e. CDR1 , CDR2, and CDR3 and framework regions.
[0058] The term “antigen-binding fragment,” as used herein refers to a polypeptide comprising at least one complementarity determining region (CDR) that binds to at least one epitope of an antigen of interest (e.g., Nectin-4). In this regard, an antigen-binding fragment may comprise 1 , 2, 3, 4, 5, or all 6 CDRs of a variable heavy chain (VH) and/or variable light chain (VL) sequence. Antigen-binding fragments include proteins that comprise a portion of a full length immunoglobulin, generally the antigen-binding or variable region thereof, such as Fab, F(ab’)2, Fab’, Fd, Fv fragments, minibodies, diabodies, single domain antibodies (dAb, also known as VHH, camelid antibodies, or nanobodies), single-chain variable fragments (scFv), rlgG, antibody mimetics, and any other modified configuration of the immunoglobulin molecule that comprises an antigen-binding fragment of the required specificity.
[0059] The term “immunoglobulin” as used herein is intended to refer to a class of structurally related glycoproteins typically consisting of two pairs of polypeptide chains, one pair of light (L) chains and one pair of heavy (H) chains, all four potentially inter-connected by disulfide bonds, although some mammalian species also produce heavy-chain only antibodies or binding agents. The term “immunoglobulin heavy chain”, “heavy chain of an immunoglobulin” or “heavy chain” as used herein is intended to refer to one of the chains of an immunoglobulin. A heavy chain is typically comprised of a heavy chain variable region (abbreviated herein as VH) and a heavy chain constant region (abbreviated herein as CH) which defines the isotype of the immunoglobulin. The heavy chain constant region typically is comprised of three domains, CH1 , CH2, and CH3. The heavy chain constant region further comprises a hinge region. Within the structure of the immunoglobulin (e.g. IgG), the two heavy chains are inter-connected via disulfide bonds in the hinge region. Equally to the heavy chains, each light chain is typically comprised of several regions: a light chain variable region (VL) and a light chain constant region (CL). Furthermore, the VH and VL regions may be subdivided into regions of hypervariability (or hypervariable regions which may be hypervariable in sequence and/or form structurally defined loops), also termed complementarity determining regions (CDRs), interspersed with regions that are more conserved, termed framework regions (FRs). Each VH and VL is typically composed of three CDRs and four FRs, arranged from amino-terminus to carboxy-terminus in the following order: FR1 , CDR1 , FR2, CDR2, FR3, CDR3, FR4. CDR sequences may be determined by use of various methods, e.g. the methods provided by Kabat et al. (1991), “Sequence of protein of immunological interest,” fifth edition. NIH publication or Chothia and Lesk (1987) J. Mol. Biol. 196:901. Various methods for CDR determination and amino acid numbering can be compared on www.abysis.org (UCL).
[0060] The constant regions of an immunoglobulin, if present, may mediate the binding of the immunoglobulin to host tissues or factors, including various cells of the immune system (such as
effector cells and T cells) and components of the complement system such as C1 q, the first component in the classical pathway of complement activation.
[0061] The term “single domain antibody,” “Nanobody®”, “VHH,” “VHH antibody,” or “VHH domain” as used herein refers to an antigen-binding fragment comprising a single monomeric variable domain (Koch-Nolte, et al, FASEB J., 21 : 3490-3498 (2007)). A single domain antibody comprises three CDRs. Examples of single-domain antibodies are variable fragments of heavy- chain-only antibodies, antibodies that naturally do not comprise light chains, single-domain antibodies derived from conventional antibodies and engineered antibodies. Single-domain antibodies may be derived from any species. For example, naturally occurring VHH molecules can be derived from antibodies raised in Camelidae species, for example in camel, dromedary, llama, alpaca and guanaco. Like an intact immunoglobulin, a single-domain antibody is able to bind selectively to a specific antigen. Single-domain antibodies may contain only the variable domain of an immunoglobulin chain, i.e. CDR1 , CDR2 and CDR3 and framework regions.
[0062] The terms “complementarity determining region” or “CDR,” as used herein, refer to the amino acid sequences within antibody variable regions which confer antigen specificity and binding affinity. For example, in general, there are three CDRs in each heavy chain variable region (e.g., HCDR1 , HCDR2, and HCDR3) and three CDRs in each light chain variable region (LCDR1 , LCDR2, and LCDR3). The precise amino acid sequence boundaries of a given CDR can be determined using any of a number of well-known schemes, including those described by Kabat et al. (1991), “Sequences of Proteins of Immunological Interest,” 5th Ed. Public Health Service, National Institutes of Health, Bethesda, Md. (“Kabat” numbering scheme), Al-Lazikani et al., (1997) JMB 273, 927-948 (“Chothia” numbering scheme), IMGT (Lefranc et al., IMGT unique numbering for immunoglobulin and T cell receptor variable domains and Ig superfamily V-like domains. Dev Comp Immunol. 2003 Jan;27(1):55-77), or a combination thereof.
[0063] The term “antigen” refers to a molecule or a portion of a molecule capable of being bound by an antibody or an antigen-binding fragment thereof and additionally capable of being used in an animal to produce antibodies capable of binding to an epitope of that antigen.
[0064] Antibody or antigen-binding fragment binding to a target antigen is typically demonstrated by a dissociation constant (KD). The term “KD” is intended to refer to the dissociation equilibrium constant of a particular antibody-antigen interaction. The ratio of dissociation rate (kOff) to association rate (kon) of an antibody to a monovalent antigen (k0ff/k0n) is the dissociation constant KD, which is inversely related to affinity. The lower the KD value, the higher the affinity of the antibody. The value of KD varies for different complexes of antibody and antigen and depends on
both kon and kOff. The dissociation constant KD for an antibody provided herein can be determined using any method provided herein or any other method well known to those skilled in the art.
[0065] In the context of binding to an antigen, the terms “binds” or “specifically binds” refer to the binding of an binding agent to a predetermined antigen or target (e.g. human Nectin-4 or V62) to which binding typically is with an affinity corresponding to a KD of about 10-6 M or less, e.g. 10-7 M or less, such as about 10-8 M or less, such as about 10-9 M or less, about 10-10 M or less, or about 10-11 M or even less, e.g. when determined as described in the Examples herein. KD values can for example be determined using for instance surface plasmon resonance (SPR) technology in a BIAcore T200 or bio-layer interferometry (BLI) in an Octet RED96 instrument using the antigen as the ligand and the binding moiety or binding molecule as the analyte. Specific binding means that the antibody binds to the predetermined antigen with an affinity corresponding to a KDthat is at least ten-fold lower, such as at least 100-fold lower, for instance at least 1 ,000 fold lower, such as at least 10,000 fold lower, for instance at least 100,000 fold lower than its affinity for binding to a non-specific antigen (e.g., BSA, casein) other than the predetermined antigen or a closely- related antigen. The degree with which the affinity is lower is dependent on the KD of the binding moiety or binding molecule, so that when the KD of the binding moiety or binding molecule is very low (that is, the binding moiety or binding molecule is highly specific), then the degree with which the affinity for the antigen is lower than the affinity for a non-specific antigen may be at least 10,000-fold.
[0066] “Polynucleotide” is used interchangeably with “oligonucleotide,” and “nucleic acid” herein, and generally means a polymer of DNA or RNA, which can be single-stranded or double-stranded, synthesized or obtained (e.g., isolated and/or purified) from natural sources, which can contain natural, non-natural or altered nucleotides, and which can contain a natural, non-natural or altered internucleotide linkage, such as a phosphoroamidate linkage or a phosphorothioate linkage, instead of the phosphodiester found between the nucleotides of an unmodified oligonucleotide, in some embodiments, the nucleic acid does not comprise any insertions, deletions, inversions, and/or substitutions. However, it may be suitable in some instances, as discussed herein, for the nucleic acid to comprise one or more insertions, deletions, inversions, and/or substitutions.
[0067] As used herein, the term “host cell” refers to any type of cell that comprises a vector or polynucleotide described herein and is typically used in the manufacturing of proteins (e.g., in the manufacturing of a single domain antibody).
[0068] The term “cancer” refers to a disease characterized by the rapid and uncontrolled growth of aberrant cells.
[0069] The term “subject” as used herein refers to a vertebrate or an invertebrate, and includes mammals, birds, fish, reptiles, and amphibians. Subjects include humans and other primates, including non-human primates such as chimpanzees and other apes and monkey species. Subjects include farm animals such as cattle, sheep, pigs, goats and horses; domestic mammals such as dogs and cats; laboratory animals including rodents such as mice, rats and guinea pigs; birds, including domestic, wild and game birds such as chickens, turkeys and other gallinaceous birds, ducks, geese, and the like; and aquatic animals such as fish, shrimp, and crustaceans.
[0070] The terms “first” and “second” antigen-binding domains when used herein do not refer to their orientation I position in the antibody, i.e. they have no meaning with regard to the N- or C- terminus. The terms “first” and “second” only serve to correctly and consistently refer to the two different antigen-binding domains in the claims and the description.
[0071] A “variant binding agent”, “variant antibody”, “binding agent variant”, or “antibody variant” is a binding agent which comprises one or more mutations (substitutions, deletions, or insertions) as compared to a binding agent described herein (referred to as a “parent binding agent” or “parent antibody”).
[0072] “% sequence identity”, when used herein, refers to the number of identical nucleotide or amino acid positions shared by different sequences (i.e., % identity = # of identical positions/total # of positions x 100), taking into account the number of gaps, and the length of each gap, which need to be introduced for optimal alignment. The percent identity between two nucleotide or amino acid sequences may e.g. be determined using the algorithm of E. Meyers and W. Miller, Comput. Appl. Biosci 4, 11-17 (1988) which has been incorporated into the ALIGN program (version 2.0), using a PAM120 weight residue table, a gap length penalty of 12 and a gap penalty of 4.
Nectin-4 Binding Agents
[0073] Nectin-4 is a member of the Nectin superfamily. Nectin-4 is involved in cellular adhesion. Human Nectin-4 is a 510 amino acid protein. The amino acid sequence of wild type human Nectin- 4 is provided as SEQ ID NO: 256. Representative Nectin-4 polynucleotide sequences (NCBI Gene ID: 81607) include NM_030916 among others, each of which are available at the Nectin-4 gene page on the NCBI website.
[0074] In some embodiments, the present disclosure provides binding agents comprising at least one antigen-binding domain that specifically binds to human Nectin-4 - referred to herein as Nectin-4 binding agents. In some embodiments, the Nectin-4 binding agent is an immunoglobulin or an antigen-binding fragment thereof. In some embodiments, the Nectin-4 binding agent is a single domain antibody.
[0075] In some embodiments, the Nectin-4 binding agent comprises a first antigen-binding domain comprising a CDR1 comprising an amino acid sequence selected from SEQ ID NOs: 88, 95, 103, 110, 117, 121 , 125, 129, and 133, a CDR2 comprising an amino acid sequence selected from SEQ ID NOs: 89, 96, 104, 111 , 118, 122, 126, 130, and 134; and a CDR3 comprising an amino acid sequence selected from SEQ ID NOs: 90, 97, 105, 112, 119, 123, 127, 131 , and 135. In some embodiments, the Nectin-4 binding agent comprises first antigen-binding domain comprising a CDR1 , CDR2, and CDR3 combination selected from Table 1A, 1B, 1C, or 1 D. In some embodiments, Nectin-4 binding agent comprises first antigen-binding domain comprising an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136. In some embodiments, the Nectin-4 binding agent comprises first antigen-binding domain comprising an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136. In some embodiments, the Nectin-4 binding agent comprises a first antigen-binding domain consisting of an amino acid sequence selected from SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
[0076] Exemplary CDRs of Nectin-4 binding agents are shown in Table 1A - Table 1D.
[0077] One of skill in the art will recognize that there are many numbering systems known in the art to define the CDR sequences of an antibody, including AbM, Kabat, Chothia, and IMGT
systems. An overview of these systems is provided in Dondelinger et al., Understanding the Significance and Implications of Antibody Numbering and Antigen-Binding Surface/Residue Definition. Front Immunol. 2018 Oct 16;9:2278. CDR sequences of the Nectin-4-specific antigenbinding domains as defined by Kabat, IMGT, and Chothia are provided in Tables 1A, 1B, and 1C above. The description of the binding agents herein refers to the CDRs as defined by the Kabat numbering system. However, one of skill in the art is able to correlate a CDR sequence defined by one numbering system to the same CDR sequence as defined by another system.
[0078] In some embodiments, a combination of CDR numbering systems may be used. In such embodiments, CDR sequences of a given binding agent as determined by multiple numbering systems (e.g., a CDR1 sequence as determined by the Kabat, IMGT, and Chothia numbering systems) are compiled into a single sequence that encompasses the entirety of each of the CDR amino acid ranges in the variable region. As an illustrative example, CDRs for the 6H4 VHH described in Tables 1A, 1B, and 1C are shown in Fig. 12. The N- and C-terminal ranges for each CDR region are indicated by dashed lines. The combined CDR sequences covering the entirety of these ranges are shown in the last row. Illustrative combined CDRs for Nectin-4 binding agents are shown in Table 1D.
[0079] As an illustrative example, a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 27, a CDR2 amino acid sequence comprising SEQ ID NO: 28, and a CDR3 amino acid sequence comprising SEQ ID NO: 29 as defined by the Kabat numbering system will be understood by one of skill in the art to be the equivalent of (1) a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 46, a CDR2 amino acid sequence comprising SEQ ID NO: 47, and a CDR3 amino acid sequence comprising SEQ ID NO: 48 as defined by the IMGT numbering system; (2) a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 64, a CDR2 amino acid sequence comprising SEQ ID NO: 65, and a CDR3 amino acid sequence comprising SEQ ID NO: 66 as defined by the Chothia numbering system; and (3) a 6H4 VHH comprising a CDR1 amino acid sequence comprising SEQ ID NO: 85, a CDR2 amino acid sequence comprising SEQ ID NO: 86, and a CDR3 amino acid sequence comprising SEQ ID NO: 87.
[0080] In some embodiments, the first antigen-binding domain comprise one or more framework regions (FR). In some embodiments, the binding agent disclosed herein are of the format FR1- CDR1-FR2-CDR2-FR3-CDR3-FR4. Exemplary framework regions are shown in Table 2 below. In some embodiments, the first antigen-binding domain comprises an FR1 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 234, 238, 242, and 246. In some embodiments, the
first antigen-binding domain comprises an FR1 amino acid sequence that comprises or consists of SEQ ID NOs: 234, 238, 242, and 246. In some embodiments, the first antigen-binding domain comprises an FR2 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 235, 239, 243, and 247. In some embodiments, the first antigen-binding domain comprises an FR2 amino acid sequence that comprises or consists of SEQ ID NOs: 235, 239, 243, and 247. In some embodiments, the first antigen-binding domain comprises an FR3 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 236, 240, 244, and 248. In some embodiments, the first antigen-binding domain comprises an FR3 amino acid sequence that comprises or consists of SEQ ID NOs: 236, 240, 244, and 248. In some embodiments, the first antigen-binding domain comprises an FR4 amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to an amino acid sequence selected from SEQ ID NOs: 237, 241 , 245, and 249. In some embodiments, the first antigen-binding domain comprises an FR4 amino acid sequence that comprises or consists of SEQ ID NOs: 237, 241 , 245, and 249. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 234, 88, 235, 89, 236, 90, and 238. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 238, 95, 239, 96, 240, 97, and 241. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 242, 103, 243, 104, 244, 105, and 245. In some embodiments, the first antigen-binding domain comprises or consists of, from N’ to C’ terminus, SEQ ID NOs: 234, 110, 235, 111 , 236, 112, and 238.
[0081] In some embodiments, the binding agent described herein comprises a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 88, a CDR2 amino acid sequence comprising SEQ ID NO: 89, and a CDR3 amino acid sequence comprising SEQ ID NO: 90. In some embodiments, one or more of CDR1 , CDR2, or CDR3 comprise one or two amino acid modification (e.g., a substitution, insertion, or deletion). In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 88, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 89, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 90, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 88, a CDR2 amino acid sequence consisting of SEQ ID NO: 89, and a CDR3 amino acid sequence consisting of SEQ ID NO: 90.
[0082] In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 91. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 91 . In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 . In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 92. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 92. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 92. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 93. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 93. In some embodiments, the first antigenbinding domain consists of SEQ ID NO: 93. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 94. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 94. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 94.
[0083] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 95, a CDR2 amino acid sequence comprising SEQ ID NO: 96, and a CDR3 amino acid sequence comprising SEQ ID NO: 97. In some embodiments, one or more of CDR1 , CDR2, or CDR3 comprise one or two amino acid modification (e.g., a substitution, insertion, or deletion). In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 95, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 96, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 97, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 95, a CDR2 amino acid sequence consisting of SEQ ID NO: 96, and a CDR3 amino acid sequence consisting of SEQ ID NO: 97.
[0084] In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 98. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 98. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 99. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 99. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 99. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 100. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 100. In some embodiments, the first antigenbinding domain consists of SEQ ID NO: 100. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 101. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 101. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 101. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 102. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 102. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 102.
[0085] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 103, a CDR2
amino acid sequence comprising SEQ ID NO: 104, and a CDR3 amino acid sequence comprising SEQ ID NO: 105. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 103, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 104, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 105, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 103, a CDR2 amino acid sequence consisting of SEQ ID NO: 104, and a CDR3 amino acid sequence consisting of SEQ ID NO: 105.
[0086] In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 106. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 106. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 107. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 107. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 107. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 108. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 108. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 108. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 109. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 109. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 109.
[0087] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 110, a CDR2 amino acid sequence comprising SEQ ID NO: 111 , and a CDR3 amino acid sequence comprising SEQ ID NO: 112. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 110, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 111 , wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 112, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 110, a CDR2 amino acid
sequence consisting of SEQ ID NO: 111 , and a CDR3 amino acid sequence consisting of SEQ ID NO: 112.
[0088] In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 113. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 113. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 113. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 114. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 114. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 114. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 115. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 115. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 115. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 116. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 116. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 116.
[0089] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 117, a CDR2 amino acid sequence comprising SEQ ID NO: 118, and a CDR3 amino acid sequence comprising SEQ ID NO: 119. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 117, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 118, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 119, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 117, a CDR2 amino acid sequence consisting of SEQ ID NO: 118, and a CDR3 amino acid sequence consisting of SEQ ID NO: 119. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 120. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 120. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 120.
[0090] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 121 , a CDR2
amino acid sequence comprising SEQ ID NO: 122, and a CDR3 amino acid sequence comprising SEQ ID NO: 123. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 121 , wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 122, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 123, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 121 , a CDR2 amino acid sequence consisting of SEQ ID NO: 122, and a CDR3 amino acid sequence consisting of SEQ ID NO: 123. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 124. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 124. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 124.
[0091] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 125, a CDR2 amino acid sequence comprising SEQ ID NO: 126, and a CDR3 amino acid sequence comprising SEQ ID NO: 127. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 125, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 126, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 127, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 125, a CDR2 amino acid sequence consisting of SEQ ID NO: 126, and a CDR3 amino acid sequence consisting of SEQ ID NO: 127. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 128. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 128. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 128.
[0092] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 129, a CDR2 amino acid sequence comprising SEQ ID NO: 130, and a CDR3 amino acid sequence comprising SEQ ID NO: 131. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 129, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 130, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 131 , wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain
comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 129, a CDR2 amino acid sequence consisting of SEQ ID NO: 130, and a CDR3 amino acid sequence consisting of SEQ ID NO: 131. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 132. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 132. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 132.
[0093] In some embodiments, the binding agents described herein comprise a first antigenbinding domain comprising a CDR1 amino acid sequence comprising SEQ ID NO: 133, a CDR2 amino acid sequence comprising SEQ ID NO: 134, and a CDR3 amino acid sequence comprising SEQ ID NO: 135. In some embodiments, CDR1 comprises the amino acid sequence of SEQ ID NO: 133, wherein one or two amino acids are modified. In some embodiments, CDR2 comprises the amino acid sequence of SEQ ID NO: 134, wherein one or two amino acids are modified. In some embodiments, CDR3 comprises the amino acid sequence of SEQ ID NO: 135, wherein one or two amino acids are modified. In some embodiments, the first antigen-binding domain comprises a CDR1 amino acid sequence consisting of SEQ ID NO: 133, a CDR2 amino acid sequence consisting of SEQ ID NO: 134, and a CDR3 amino acid sequence consisting of SEQ ID NO: 135. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, or 99% identical to SEQ ID NO: 136. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 136. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 136.
[0094] In some embodiments, one or more amino acid substitutions are introduced into a Nectin- 4 binding agent described herein. In some embodiments, the one or more amino acid substitutions is a conservative amino acid substitution. The phrase "conservative amino acid substitution" or "conservative mutation" refers to the replacement of one amino acid by another amino acid with a common property. A functional way to define common properties between individual amino acids is to analyze the normalized frequencies of amino acid changes between corresponding proteins of homologous organisms (Schulz, G. E. and Schirmer, R. H., Principles of Protein Structure, Springer-Verlag, New York (1979)). According to such analyses, groups of amino acids may be defined where amino acids within a group exchange preferentially with each other, and therefore resemble each other most in their impact on the overall protein structure (Schulz, G. E. and Schirmer, R. H., supra). Examples of conservative mutations include amino acid substitutions of amino acids within the sub-groups above, for example, lysine for arginine and vice versa such that a positive charge may be maintained; glutamic acid for aspartic acid and vice versa such that a negative charge may be maintained; serine for threonine such that a free -OH can be
maintained; and glutamine for asparagine such that a free -NH2 can be maintained. Examples of amino acid classes are provided in Table 3, Table 4, and Table 5 below.
[0095] In some embodiments, the one or more amino acid substitutions is a non-conservative amino acid substitution. "Non-conservative substitutions" involve amino acid substitutions between different groups, for example, lysine for tryptophan, or phenylalanine for serine, etc. In this case, it is preferable for the non-conservative amino acid substitution to not interfere with or inhibit the biological activity of the binding agent (i.e. , does not interfere with binding to the target antigen). The non-conservative amino acid substitution may enhance the biological activity of the
functional variant, such that the biological activity of the functional variant is increased as compared to the parent binding agent.
[0096] In some embodiments, the binding agents described herein are chimeric antibodies, wherein the variable region is derived from a non-human species (e.g. derived from rodents) and the constant region is derived from a different species, such as human. Chimeric antibodies may be generated by genetic engineering. Chimeric monoclonal antibodies for therapeutic applications are developed to reduce antibody immunogenicity.
[0097] In some embodiments, the binding agents described herein are humanized immunoglobulins or antigen-binding fragments thereof. A “humanized” immunoglobulin is an immunoglobulin including a human framework region and one or more CDRs from a non-human (such as a mouse, rat, or synthetic) immunoglobulin. The non-human immunoglobulin providing the CDRs is termed a “donor,” and the human immunoglobulin providing the framework is termed an “acceptor.” In one embodiment, all the CDRs are from the donor immunoglobulin in a humanized immunoglobulin. Constant regions need not be present, but if they are, they must be substantially identical to human immunoglobulin constant regions, such as at least about 85-90%, such as about 95% or more identical. Hence, all parts of a humanized immunoglobulin, except possibly the CDRs, are substantially identical to corresponding parts of natural human immunoglobulin sequences.
[0098] A “humanized antibody” is an antibody comprising a humanized light chain and/or a humanized heavy chain immunoglobulin. A humanized antibody binds to the same antigen as the donor antibody that provides the CDRs. The acceptor framework of a humanized immunoglobulin or antibody may have a limited number of substitutions by amino acids taken from the donor framework. Humanized or other monoclonal antibodies can have additional conservative amino acid substitutions which have substantially no effect on antigen-binding or other immunoglobulin functions. Humanized immunoglobulins can be constructed by means of genetic engineering (for example, see U.S. Patent No. 5,585,089).
[0099] In some embodiments, the Nectin-4 binding agents described herein have a binding affinity (KD) for human Nectin-4 of less than 10“7 M, such as approximately less than 10“8 M, less than 10“9 M, or less than 10“1° M when determined by surface plasmon resonance (SPR) using recombinant human Nectin-4 as the analyte and the Nectin-4 binding agent as the ligand. In some embodiments, the binding agent binds to human Nectin-4 with an affinity that is at least 1.1-, 1.2- , 1.3-, 1.4-, 1.5-, 1.6-, 1.7-, 1.8-, 1.9-, 2.0-, 2.5-, 3.0-, 3.5-, 4.0-, 4.5-, 5.0-, 6.0-, 7.0-, 8.0-, 9.0-, or 10.0-fold or greater than its affinity for binding to a non-specific antigen (e.g., BSA, casein).
[0100] Methods of testing binding agents for the ability to bind a target antigen are known in the art and include any antibody-antigen binding assay, such as, for example, radioimmunoassay (RIA), ELISA, Western blot, immunoprecipitation, and competitive inhibition assays (see, e.g., Janeway et al., infra, U.S. Patent Application Publication No. 2002/0197266 Al, and U.S. Patent No. 7,338,929).
[0101] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to recombinant Nectin-4 protein with a KD of less than 10 nM, for example less than 5 nM, less than 2 nM, less than 1 nM or less than 0.5 nM, as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein.
[0102] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to recombinant Nectin-4 protein with a KD of between 10 nM and 1 nM, such as between 5 nM and 1 nM as determined by BioLayer Interferometry according to the methods described in Example 5 herein.
[0103] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to BeWo cells with an EC50 of less than 0.5 nM, when tested as described in Example 3 herein. In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to A-431 cells with an EC50 of less than 0.5 nM, when tested as described in Example 3 herein. In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to HT-29 cells with an EC50 of less than 2 nM, when tested as described in Example 3 herein.
[0104] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of binding to Vy9V52 T cells with an EC50 of less than 5 nM, such as less than 2 nM, less than 1 nM, or less than 0.5 nM when tested as described in Example 9 herein.
[0105] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein capable of binding cynomolgus Nectin-4 and/or murine Nectin-4.
[0106] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of mediating killing of Nectin-4-expressing tumor cells, such as BeWo, A-431 , or HT-29 cells, by Vy9V52 T cells.
[0107] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of inducing killing of A-431 cells through
activation of Vy9V52 T cells with an EC50 value of 100 pM or less, such as 20 pM or less, e.g. 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein. [0108] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are not capable of mediating killing of Nectin-4-negative cells, such as Nectin-4 negative human cells.
[0109] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are capable of mediating killing of Nectin-4-positive cells, such as Nectin-4-positive tumor cells, by Vy9V52 T cells.
[0110] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are:
(a) capable of binding to recombinant human Nectin-4 with a KD of less than 10 nM, for example less than 5 nM, less than 2 nM, less than 1 nM or less than 0.5 nM, as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein; and
(b) capable of inducing killing of A-431 cells through activation of Vy9V52 T cells with an EC5O value of 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein.
[0111] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein are:
(a) capable of binding to recombinant Nectin-4 protein with a KD of between 10 nM and 1 nM, such as between 5 nM and 1 nM as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein; and
(b) capable of inducing killing of A-431 cells through activation of Vy9V52 T cells with an ECso value of 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein.
[0112] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein have all of the following properties:
(a) capable of mediating killing BeWo, A-431 and HT-29 cells, by Vy9V52 T cells,
(b) capable of inducing killing of A-431 cells through activation of Vy9V52 T cells with an EC50 value of 100 pM or less, such as 20 pM or less, e.g. 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein.
(c) capable of binding human Nectin-4, cynomolgous Nectin-4 and murine Nectin-4, and
(d) capable of binding to recombinant human Nectin-4 with a KD of less than 10 nM, for example less than 5 nM, less than 2 nM, less than 1 nM or less than 0.5 nM, as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein.
[0113] In some embodiments, the Nectin-4 binding agents and multi-specific binding agents comprising the same described herein have all of the following properties:
(a) capable of mediating killing BeWo, A-431 and HT-29 cells, by Vy9V52 T cells,
(b) capable of inducing killing of A-431 cells through activation of Vy9V52 T cells with an EC5O value of 100 pM or less, such as 20 pM or less, e.g. 10 pM or less, or even 7 pM or less, or 5 pM or less when tested as described in Example 10 herein,
(c) capable of binding human Nectin-4, cynomolgous Nectin-4 and murine Nectin-4, and
(d) capable of binding to recombinant Nectin-4 protein with a KD of between 10 nM and 1 nM, such as between 5 nM and 1 nM as determined by Bio-Layer Interferometry according to the methods described in Example 5 herein.
[0114] In the context of the present invention, “capable of competing” or “able to compete” or “competes” refers to any detectably significant reduction in the propensity for a particular binding molecule (e.g., a Nectin-4 binding agent) to bind a particular binding partner (e.g. Nectin-4) in the presence of another molecule (e.g. a different Nectin-4 binding agent) that binds the binding partner. Typically, competition means that saturating binding of the first binding agent to the antigen (Nectin-4) blocks or prevents binding of the second binding agent, as determined by, e.g., biolayer interferometry (BLI) as described in Example 6 herein using sufficient amounts of the two (or more) competing binding agents. Additional methods for determining binding specificity by competitive inhibition may be found in for instance Harlow et al., Antibodies: A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y., (1988), Colligan et al., eds., Current Protocols in Immunology, Greene Publishing Assoc, and Wiley InterScience N. Y., (1992, 1993), and Muller, Meth. Enzymol. 92, 589-601 (1983).
[0115] In one embodiment, the binding agent or multi-specific comprising the same of the present disclosure binds to the same epitope on Nectin-4 as Nectin-4 binding agents LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185 LV1186 and/or LV1187 and/or to the same epitope on V52 as the 5C8 or 6H4 binding agents (WO 2015/156673) or the variants of 5C8 set forth in SEQ ID NOs: 8, 9, 13, 17, 21 , 22, and 26. There are several methods available for mapping the binding agent binding epitopes on target antigens known in the art, including but not limited to: crosslinking coupled mass spectrometry, allowing identification of peptides that are part of the epitope, and X-ray crystallography identifying individual residues on the antigen that form the
epitope. Epitope residues can be determined as being all amino acid residues with at least one atom less than or equal to 5 A from the antibody. 5 A was chosen as the epitope cutoff distance to allow for atoms within a van der Waals radius plus a possible water-mediated hydrogen bond. Next, epitope residues can be determined as being all amino acid residues with at least one atom less than or equal to 8 A. Less than or equal to 8 A is chosen as the epitope cutoff distance to allow for the length of an extended arginine amino acid. Crosslinking coupled mass spectrometry begins by binding the antibody and the antigen with a mass labeled chemical crosslinker. Next the presence of the complex is confirmed using high mass MALDI detection. Because after crosslinking chemistry the Ab/Ag complex is extremely stable, many various enzymes and digestion conditions can be applied to the complex to provide many different overlapping peptides. Identification of these peptides is performed using high resolution mass spectrometry and MS/MS techniques. Identification of the crosslinked peptides is determined using mass tag linked to the cross-linking reagents. After MS/MS fragmentation and data analysis, peptides that are crosslinked and are derived from the antigen are part of the epitope, while peptides derived from the binding agent are part of the paratope. All residues between the most N- and C-terminal crosslinked residue from the individual crosslinked peptides found are considered to be part of the epitope or paratope.
Multi-specific Binding Agents
[0116] In some embodiments, the Nectin-4 binding agent is a multi-specific binding agent. In some embodiments, the multi-specific binding agent comprises a first antigen-binding domain that specifically binds to human Nectin-4 described above and a second antigen-binding domain that specifically binds to a second target antigen or epitope (e.g., a bispecific binding agent). In some embodiments, the multi-specific binding agent comprises a first antigen-binding domain that specifically binds to human Nectin-4, a second antigen-binding domain that specifically binds to a second target antigen or epitope, and a third antigen-binding domain that specifically binds to a third target antigen or epitope.
[0117] In some embodiments, the multi-specific binding agent is in a VHH-Fc format, i.e. the binding agent comprises two or more single-domain antigen-binding domains that are linked to each other via a human Fc domain dimer. In this format, each single-domain antigen-binding domain is fused to an Fc region polypeptide and the two fusion polypeptides form a dimeric bispecific binding agent via disulfide bridges in the hinge region. Such constructs typically do not contain full, or any, CH1 or light chain sequences. Figure 12B of WO 2006/064136 provides an illustration of an example of this embodiment.
[0118] In some embodiments, the multi-specific binding agents provided herein comprise a first antigen-binding domain that specifically binds to human Nectin-4 and a second antigen-binding domain that specifically binds to an antigen expressed on an immune cell. The term “immune cell” refers to cells involved in mounting innate and adaptive immune responses, including but not limited to lymphocytes (such as T-cells and B-cells), natural killer (NK) cells, NKT cells, macrophages, monocytes, eosinophils, basophils, neutrophils, dendritic cells, and mast cells. In some embodiments, the immune cell is a T cell, such as a CD4+ T cell, a CD8+ T cell (also referred to as a cytotoxic T cell or CTL), or a yb T cell. In some embodiments, the immune cell is cell.
[0119] In some embodiments, the second antigen-binding domain specifically binds to a target antigen selected from CD3, CD2, a8 T cell receptors, Y<5 T cell receptors (e.g., V52 TCR or V51 TCR), CD56, CD16, CD19, and CD20.
[0120] In some embodiments, the second antigen-binding domain specifically binds to a Y<5 T cell receptor. Antigen-binding domains that specifically bind to V51 + T cells are known in the art. See e.g., WO 2021/032963. Antigen-binding domains that specifically bind to V52+ T cell receptors are known in the art. See e.g., WO 2015/156673, WO 2022/008646, WO 2022/122973, and WO 2023/242319, each disclosing antigen-binding domains that specifically bind to V52 and each incorporated herein by reference.
[0121] In some embodiments, the second antigen-binding domain specifically binds to human V52. In some embodiments, the multi-specific binding agents provided herein are capable of binding the V52 chain of a Vy9V52-TCR. “Capable of binding the V52 chain of a VY9V52-TCR” means that the binding agent disclosed herein or multi-specific binding agent comprising the same can bind the V52 chain as a separate molecule and/or as part of a Vy9V52-TCR. This can be referred to as a V52 binding agent. However, the binding agent or multi-specific binding agent comprising the same will not bind to the Vy9 chain as a separate molecule. The term “human V52”, when used herein, refers to the rearranged 52 chain of the Vy9V52-T cell receptor (TCR). UniProtKB - A0JD36 (A0JD36_HUMAN) gives an example of a variable TRDV2 sequence. The sequence of human V52 is set forth in SEQ ID NO:266. Exemplary Vy9V52 TCR antigen-binding domain sequences are shown in Table 6A, Table 6B, Table 6C, and Table 6D.
Table 6A: Exemplary V52 TCR-specific CDR (Kabat) and VHH Sequences
Table 6B: Exemplary V52 TCR-specific CDR Sequences (IMGT)
[0122] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89, and a CDR3 of SEQ ID NO: 90; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94, and the second antigenbinding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 91 , 92, 93, and 94, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0123] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96, and a CDR3 of SEQ ID NO: 97; and (ii) a second antigen-binding domain that binds to V52
and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 98, 99, 100, 101 , and 102, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0124] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104, and a CDR3 of SEQ ID NO: 105; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 106, 107, 108, and 109, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 106, 107, 108, and 109, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 106, 107, 108, and 109, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0125] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 , and a CDR3 of SEQ ID NO: 112; and (ii) a second antigen-binding domain that binds to
V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 113, 114, 115, and 116, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain comprises a sequence selected from SEQ ID NOs: 113, 114, 115, and 116, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of a sequence selected from SEQ ID NOs: 113, 114, 115, and 116, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0126] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 117, a CDR2 of SEQ ID NO: 118, and a CDR3 of SEQ ID NO: 119; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 120, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 120, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 120, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0127] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 121 , a CDR2 of SEQ ID NO: 122, and a CDR3 of SEQ ID NO: 123; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding
domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 124, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 124, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 124, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0128] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 125, a CDR2 of SEQ ID NO: 126, and a CDR3 of SEQ ID NO: 127; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 128, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 128, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 128, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0129] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 129, a CDR2 of SEQ ID NO: 130, and a CDR3 of SEQ ID NO: 131 ; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 132, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least
95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 132, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 132, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0130] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain that binds to Nectin-4 and comprises a CDR1 of SEQ ID NO: 133, a CDR2 of SEQ ID NO: 134, and a CDR3 of SEQ ID NO: 135; and (ii) a second antigen-binding domain that binds to V52 and comprises a combination of CDR sequences selected from Table 6A (e.g., the CDR combinations for any of the described VHHs). In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical SEQ ID NO: 136, and the second antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 136, and the second antigen-binding domain comprises a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 136, and the second antigen-binding domain consists of a sequence selected from SEQ ID NOs: 4, 8, 9, 13, 17, 21 , 22, 26, and 30.
[0131] In some embodiments, any of the multi-specific binding agents disclosed herein are modified to reduce or eliminate the formation of pyroglutamic acid at the N-terminus of the modified multi-specific binding agents as compared to the unmodified multi-specific binding agents of this disclosure. In some embodiments, the glutamate residue (E) or glutamine (Q) residue at the first position is modified to an aspartic acid residue (D). In some embodiments, any of the multi-specific binding agents of the present disclosure may comprise an aspartic acid (D) residue in the first position.
[0132] In some embodiments, the Nectin-4 binding agent, or multi-specific binding agent comprising the same, comprises an aspartic acid or a glutamic acid residue at the N-terminal amino acid position and elutes earlier in reversed-phase HPLC as described in Example 15, than a Nectin-4 binding agent or multi-specific binding agent comprising the same that comprises a pyroglutamate residue at the N-terminal amino acid position.
[0133] In some embodiments, the V52 binding agent, or multi-specific binding agent comprising the same, comprises an aspartic acid or a glutamic acid residue at the N-terminal amino acid position and elutes earlier in reversed-phase HPLC as described in Example 15, than a Nectin-4 binding agent or multi-specific binding agent comprising the same that comprises a pyroglutamate residue at the N-terminal amino acid position.
[0134] In some embodiments, the second antigen-binding domain specifically binds to human Vy9. In some embodiments, the multi-specific binding agents provided herein are capable of binding the Vy9 chain of a Vy9V52-TCR. “Capable of binding the Vy9 chain of a Vy9V52-TCR” means that the binding agent disclosed herein or multi-specific binding agent comprising the same can bind the Vy9 chain as a separate molecule and/or as part of a Vy9V52-TCR. However, the binding agent or multi-specific binding agent comprising the same will not bind to the V52 chain as a separate molecule. The term “human Vy9”, when used herein, refers to the rearranged Vy9 chain of the Vy9V52-T cell receptor (TCR). UniProtKB - Q99603 (TRGV9_HUMAN) gives an example of a variable Vy9 sequence. Exemplary Vy9V52 TCR antigen-binding domain sequences are known in the art, see e.g. WO 2015/156673.
[0135] In some embodiments, the multi-specific binding agents provided herein are able to active Vy9V52-T cells. “Able to activate Vy9V52-T cells” in the context of the present disclosure refers to activation of Vy9V52-T cells in the presence of a multi-specific binding agent, such as a bispecific binding agent, of the disclosure in the presence of a target cell expressing Nectin-4. Preferably the activation of the Vy9V52-T cells is measurable through gene-expression and/or (surface) marker expression (e.g., activation markers, such as CD25, CD69, or CD107a) and/or secretory protein (e.g., cytokines or chemokines) profiles. In some embodiments, the multispecific binding agent is able to induce activation (e.g. upregulation of CD69 and/or CD25 expression) resulting in degranulation (marked by an increase in CD107a expression; see e.g. Fig. 7A) and cytokine production (e.g. TNF, IFN-y) by Vy9V52-T cells. Preferably, the multispecific binding agent that is used is able to increase CD107a expression on Vy9V52-T cells to at least 10%, more preferably at least 20%, more preferably at least 40%, most preferably at least 90%, when used in an assay as described in Example 10 herein, wherein e.g. 10% means that 10% of the total number of cells is positive for CD107a. In another embodiment, the number of cells positive for CD107a is increased 1.5-fold, such as 2-fold, e.g. 5-fold, in the presence of a multi-specific binding agent of the disclosure.
Fc domains
[0136] In some embodiments, the present disclosure provides a Nectin-4 binding agent or multispecific binding agent comprising the same, further comprising an Fc domain. In some embodiments, the Fc domain comprises a first and a second Fc domain monomer.
[0137] As used herein, “Fc domain” or “Fc region” describes the minimum region (in the context of a larger polypeptide) or smallest protein folded structure (in the context of an isolated protein) that can bind to or be bound by an Fc receptor (FcR). The Fc domain is the fragment of an antibody which would be typically generated after digestion with papain, and generally includes the two CH2-CH3 regions of an immunoglobulin and a hinge region. As used herein, “Fc domain monomer” describes the single chain protein that, when associated with another Fc domain monomer, forms a functional Fc domain. The association of two Fc domain monomers creates one Fc domain. When two Fc domain monomers associate, the resulting Fc domain has Fc receptor binding activity. Thus, an Fc domain is a dimeric structure that can bind an Fc receptor. Unless otherwise noted, all references herein to an “Fc domain” are to be understood as referring to a dimeric Fc domain, in which each Fc domain monomer comprises the referenced mutation. The Fc domain mediates the effector functions of antibodies with cell surface receptors called Fc receptors and proteins of the complement system.
[0138] It will be understood that Fc domain as used herein includes the polypeptides comprising the constant region of an antibody excluding the first constant region immunoglobulin domain. Thus, Fc domain refers to the last two constant region immunoglobulin domains (CH2, CH3) of IgG and optionally the flexible hinge N-terminal to these domains. Unless otherwise noted, all references to amino acid positions in Fc domains and Fc domain monomers are according to the EU index as set forth in Kabat (1991 , NIH Publication 91-3242, National Technical Information Service, Springfield, Va.). It is noted that polymorphisms have been observed at a number of Fc domain positions, including but not limited to Kabat 270, 272, 312, 315, 356, and 358, and thus slight differences between the sequences provided herein and sequences in the art may exist.
[0139] The Fc domain may be derived from any of a variety of different antibody isotypes, including but not limited to, a wild-type or modified lgG1 , lgG2, lgG3, lgG4. IgA, IgE, or IgM. In some embodiments, the Fc domain is derived from a human lgG1.
[0140] There are many known polymorphs for the lgG1 Fc domain, including the “DEL” polymorph and the “EEM” polymorph. The DEL polymorph comprises the amino acids D-E-L at positions 356, 357, and 358, respectively (e.g., SEQ ID NO: 220). The EEM polymorph comprises the amino acids E-E-M at positions 356, 357, and 358, respectively (e.g., SEQ ID NO: 219). Two binding agents that are otherwise identical except for the presence of a DEL Fc domain or an
EEM Fc domain are expected to demonstrate similar properties in terms of ligand binding and therapeutic efficacy. In some embodiments, the Fc domain is a DEL Fc domain. In some embodiments of the technology, the Fc domain is an EEM Fc domain.
[0141] In some embodiments, the Fc domain is a variant Fc domain that forms a variant Fc domain with a desirable property, such as increased half-life, compared to naturally occurring (wild-type) Fc sequences. As used herein, a “variant Fc domain” refers to a non-naturally occurring Fc domain, for example an Fc domain comprising one or more non-naturally occurring amino acid residues, one or more amino acid substitutions relative to a wild-type human constant domain, or one or more amino acid deletion, addition and/or modification.
[0142] The serum half-life of binding agents comprising Fc domains may be increased by increasing the binding affinity of the Fc domain for FcRn. In some embodiments, the Fc domain variant has enhanced serum half-life relative to a comparable molecule. In a particular embodiment, the Fc domain variant comprises at least one amino acid substitution at one or more positions selected from the group consisting of M252Y, S254T and T256E (referred to herein as “YTE”; e.g., SEQ ID NO: 221 and 222). In another embodiment, the Fc domain variant comprises a Y at position 252 (referred to herein as “Y”, e.g., SEQ ID NO: 223 and 224). Optionally, the Fc domain variant may comprise a non-naturally occurring amino acid residue at additional and/or alternative positions known to one skilled in the art (see, e.g., U.S. Pat. Nos. 5,624,821 ; 6,277,375; 6,737,056; PCT Patent Publications WO 01/58957; WO 02/06919; WO 04/016750; WO 04/029207; WO 04/035752; WO 04/074455; WO 04/099249; WO 04/063351 ; WO 05/070963; WO 05/040217, WO 05/092925, and WO 06/020114).
[0143] Examples for means to extend serum half-life of the binding agents of the disclosure include peptides, proteins or domains of proteins, which are fused or otherwise attached to the binding agents. The group of peptides, proteins or protein domains includes peptides binding to other proteins with preferred pharmacokinetic profile in the human body such as serum albumin (see WO 2009/127691). As used herein, the term "human serum albumin" refers to the albumin protein present in human blood plasma. Human serum albumin is the most abundant protein in the blood. It constitutes about half of the blood serum protein. In some embodiments, a human serum albumin has the sequence of UniProt ID NO: P02768.
[0144] An alternative concept of such half-life extending peptides includes peptides binding to the neonatal Fc receptor (FcRn, see WO 2007/098420), which can also be used in the polypeptides and binding agents of the present disclosure. The concept of attaching larger domains of proteins or complete proteins includes e.g. the fusion of human serum albumin, variants or mutants of human serum albumin (see WO 2011/051489, WO 2012/059486, WO 2012/150319, WO
2013/135896, WO 2014/072481 , WO 2013/075066) or domains thereof as well as the fusion of constant region of immunoglobulins (Fc domains) and variants thereof, as described herein. Such variants of Fc domains may be optimized/modified in order to allow the desired pairing of dimers or multimers, to abolish Fc receptor binding (e.g., the Fey receptor), to enhance binding to FcRn, or for other reasons. A further concept known in the art to extend the half-life of small protein compounds in the human body is the pegylation of those compounds such as the polypeptide or binding agent of the present disclosure.
[0145] In an exemplary embodiment, the Fc domain monomer allows assembly of two or more polypeptide chains in a covalent manner, for example by disulfide linking between cysteine residues. In this way the Fc domain monomer acts as a dimerization domain, allowing assembly of two polypeptide chains to form a dimer. In some embodiments, such dimers comprise two polypeptides, each polypeptide including an antigen-binding domain described herein linked to an Fc domain monomer, thereby forming a bivalent binding agent. In some embodiments, such dimers comprise two polypeptides, one polypeptide comprising an antigen-binding domain described herein linked to an Fc domain monomer, and one polypeptide comprising an Fc domain monomer, thereby forming a monovalent binding agent.
[0146] The Fc domain may be a heterodimer comprising two Fc monomers, wherein the first antigen-binding domain is fused to the first Fc monomer and the second antigen-binding domain is fused to the second Fc monomer and wherein the first and second Fc monomers comprise asymmetric amino acid mutations that favor the formation of heterodimers over the formation of homodimers (see e.g., Ridgway et al. (1996) 'Knobs-into-holes' engineering of antibody CH3 domains for heavy chain heterodimerization. Protein Eng 9:617). The CH3 regions of the Fc monomers may comprise said asymmetric amino acid mutations, for example the first Fc polypeptide may comprise a T366W substitution, and the second Fc polypeptide may comprise T366S, L368A and Y407V substitutions, or vice versa, wherein the amino acid positions correspond to human lgG1 according to the EU numbering system. Furthermore, the cysteine residues at position 220 in the first and second Fc polypeptides may have been deleted or substituted, wherein the amino acid position corresponds to human lgG1 according to the EU numbering system.
[0147] Furthermore, the first and/or second Fc monomers may contain mutations that render the antibody inert, i.e. unable to, or having reduced ability to, mediate Fc effector functions (e.g., Fc- mediated cross-linking of FcRs). The inert Fc domain may in addition not be able to bind C1 q and/or one or more Fc receptors. In some embodiments, the first and second Fc monomers may comprise a mutation at position 234 and/or 235, for example the first and second Fc monomer
may comprise an L234F and an L235E substitution, wherein the amino acid positions correspond to human lgG1 according to the EU numbering system. In some embodiments, the first and second Fc monomers may comprise an L234A and L235A substitution. In some embodiments, the first and second Fc domain monomers may further comprise a P329G substitution and/or a D265A substitution.
[0148] Exemplary Fc domain monomer sequences are shown in TABLE 7. Hinge sequences are shown in bold and italicized text; DEL and EEM polymorphisms are shown in boxed text; mutations relative to WT IgG 1 are shown in bold and underlined text.
[0149] In some embodiments, the Fc domains described in Table 7 comprise a wild type lgG1 hinge (e.g., SEQ ID NO: 232 - EPKSDKTHTCPPCP). In some embodiments, the Fc domains
described in Table 7 comprise a modified lgG1 hinge (e.g., SEQ ID NO: 233 - AAASDKTHTCPPCP). In some embodiments, the Fc domain sequences may further comprise a lysine (K) residue at the C terminus.
Linkers
[0150] In some embodiments, the multi-specific binding agents disclosed herein comprise one or more linkers. As used herein, the term “linker” refers to a short stretch of amino acids used to connect two functional domains (e.g., antigen-binding domains or Fc domains) together in a polypeptide chain. For example, in some embodiments of the multi-specific binding agents of the disclosure, the antigen-binding domains are linked together on a polypeptide chain via one or more peptide linkers. Peptide linkers can also be used to attach other domains (such as half-life extension domains) to the multi-specific binding agents of the disclosure.
[0151] Suitable linkers are known in the art and include, for example, peptide linkers containing flexible amino acid residues such as glycine, alanine, and serine. In some embodiments, a linker can contain motifs, e.g., multiple or repeating motifs, of GA, GS, GG, GGA, GGS, GGG, GGGA (SEQ ID NO: 250), GGGS (SEQ ID NO: 251), GGGG (SEQ ID NO: 252), GGGGA (SEQ ID NO: 253), GGGGS (SEQ ID NO: 254), GGGGG (SEQ ID NO: 255), GGAG (SEQ ID NO: 256), GGSG (SEQ ID NO: 257), AGGG (SEQ ID NO: 258), or SGGG (SEQ ID NO: 259).
Polynucleotides
[0152] In some embodiments, the present disclosure provides a polynucleotide encoding any one of the Nectin-4 binding agents described herein. In some embodiments, the polynucleotide encodes a polypeptide sequence having at least about any one of 85%, 86%, 87%, 88%, 89%, 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100% sequence identity to a polynucleotide selected from the group consisting of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
[0153] Methods of determining sequence similarity or identity between two or more nucleic acid sequences or amino acid sequences are known in the art. For example, sequence similarity or identity may be determined using the local sequence identity algorithm of Smith & Waterman, Adv. Appl. Math. 2, 482 (1981), by the sequence identity alignment algorithm of Needleman & Wunsch J Mol. Biol. 48, 443 (1970), by the search for similarity method of Pearson & Lipman, Proc. Natl. Acad. Sci. USA 85, 2444 (1988), by computerized implementations of these algorithms (GAP, BESTFIT, FASTA, and TFASTA in the Wisconsin Genetics Software Package, Genetics Computer Group, 575 Science Drive, Madison, Wl), the Best Fit sequence program described by Devereux et al. Nucl. Acid Res. 12, 387-395 (1984), or by inspection.
[0154] Another suitable algorithm is the BLAST algorithm, described in Altschul et al. J. Mol. Biol. 215, 403-410, (1990) and Karlin et al. Proc. Natl. Acad. Sci. USA 90, 5873-5787 (1993). A particularly useful BLAST program is the WU-BLAST-2 program which was obtained from Altschul et al. Methods in Enzymology, 266, 460-480 (1996); blast.wustl/edu/blast/README.html. WU- BLAST-2 uses several search parameters, which are optionally set to the default values. The parameters are dynamic values and are established by the program itself depending upon the composition of the particular sequence and composition of the particular database against which the sequence of interest is being searched; however, the values may be adjusted to increase sensitivity. Further, an additional useful algorithm is gapped BLAST as reported by Altschul et al, (1997) Nucleic Acids Res. 25, 3389-3402. Unless otherwise indicated, percent identity is determined herein using the algorithm available at the internet address: blast.ncbi.nlm.nih.gov/Blast.cgi.
[0155] In some embodiments, polynucleotide sequences described herein have been codon- optimized for improved expression. Without wishing to be bound by theory, it is believed that codon optimization of the nucleotide sequence increases the translation efficiency of the mRNA transcripts. Codon optimization of the nucleotide sequence may involve substituting a native codon for another codon that encodes the same amino acid, but can be translated by tRNA that is more readily available within a cell, thus increasing translation efficiency. Optimization of the nucleotide sequence may also reduce secondary mRNA structures that would interfere with translation, thus increasing translation efficiency.
[0156] The polynucleotides provided by the present disclosure may be not naturally occurring or may have a sequence that is made by an artificial combination of two otherwise separated segments of sequence. This artificial combination is often accomplished by chemical synthesis or, more commonly, by the artificial manipulation of isolated segments of nucleic acids, e.g., by genetic engineering techniques, such as those described in Sambrook et al., supra. The nucleic acids can be constructed based on chemical synthesis and/or enzymatic ligation reactions using procedures known in the art. See, for example, Sambrook et al., supra, and Ausubel et al. supra. For example, a nucleic acid can be chemically synthesized using naturally occurring nucleotides or variously modified nucleotides designed to increase the biological stability of the molecules or to increase the physical stability of the duplex formed upon hybridization (e.g., phosphorothioate derivatives and acridine substituted nucleotides). Examples of modified nucleotides that can be used to generate the nucleic acids include, but are not limited to, 5-flurouracil, 5-bromouracil, 5- chlorouracil, 5-iodouracil, hypoxanthine, xanthine, 4-acetylcytosine, 5-(carboxyhydroxymethyl) uracil, 5-carboxymethylaminomethyl-2 -thiouridine, 5-carboxymethylaminomethyluracil,
dihydrouracil, beta-D-galactosylqueosine, inosine, N6-isopenenyladenine, 1-methylguanine, 1- methylinosine, 2,2-dimethylguanine, 2-methyladenine, 2-methylguanine, 3-methylcytosine, 5- methylcytosine, N6-substituted adenine, 7-methylguanine, 5-methylaminomethyluracil, 5- methoxyaminomethyl-2-thiouracil, beta-D-mannosylqueosine, 5’-methoxycarboxymethyluracil, 5- methoxyuracil, 2-methylthio-N6-isopentenyladen ine, uracil-5-oxyacetic acid (v), wybutoxosine, pseudouracil, queosine, 2-thiocytosine, 5-methyl-2-thiouracil, 2-thiouracil, 4-thiouracil, 5- methyluracil, uracil-5-oxyacetic acid methylester, 3-(3-amino-3-N-2-carboxypropyl) uracil, and 2,6-diaminopurine. Alternatively, one or more of the nucleic acids provided by the present disclosure can be purchased from companies, such as integrated DNA Technologies (Coralville, IA, USA).
[0157] In some embodiments, the polynucleotides described herein comprise a nucleic acid sequence encoding a signal peptide at the 5’ end of the nucleic acid sequence encoding the binding agents described herein. In some embodiments, the signal peptide facilitates secretion of the encoded protein from a host cell (e.g., secretion of the Nectin-4 binding agents or multi-specific binding agents comprising the same). A person of skill in the art will recognize that signal peptides are cleaved during intracellular transport such that the mature proteins do not express the signal peptide. Signal peptides suitable for use according to the present disclosure are known in the art, for example signal peptides derived from GMCSF, the IgK -chain, CD8a, CD33, or TPA.
Vectors
[0158] In some embodiments, the present disclosure provides a vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same.
[0159] In some embodiments, the vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is a viral vector. Illustrative viral vectors include, but are not limited to, adeno- associated virus (AAV), retrovirus (e.g., lentivirus), herpes simplex virus, adenovirus, and vaccinia virus. AAV (rAAV) vectors are typically composed of, at a minimum, a transgene and its regulatory sequences, and 5' and 3' AAV inverted terminal repeats (ITRs). In particular embodiments, the rAAV comprises ITRs and capsid sequences isolated from AAV1 , AAV2, AAV3, AAV4, AAV5, AAV6, AAV7, AAV8, AAV9, or AAV10. In some embodiments, the ITR sequences of one AAV serotype and the capsid sequences of a different AAV serotype may be used to create a chimeric rAAV. In some embodiments, engineering and selection methods can be applied to AAV capsids to make them more likely to transduce cells of interest. Construction of rAAV vectors, production, and purification thereof have been disclosed,
e.g., in U.S. Patent Nos. 9,169,494; 9,169,492; 9,012,224; 8,889,641 ; 8,809,058; and 8,784,799, each of which is incorporated by reference herein, in its entirety.
[0160] Illustrative retroviruses suitable for use in particular embodiments, include, but are not limited to: Moloney murine leukemia virus (M-MuLV), Moloney murine sarcoma virus (MoMSV), Harvey murine sarcoma virus (HaMuSV), murine mammary tumor virus (MuMTV), gibbon ape leukemia virus (GaLV), feline leukemia virus (FLV), spumavirus, Friend murine leukemia virus, Murine Stem Cell Virus (MSCV) and Rous Sarcoma Virus (RSV)) and lentivirus. Illustrative lentiviruses include, but are not limited to, HIV (human immunodeficiency virus; including HIV type 1 , and HIV type 2); visna-maedi virus (VMV) virus; the caprine arthritis-encephalitis virus (CAEV); equine infectious anemia virus (EIAV); feline immunodeficiency virus (FIV); bovine immune deficiency virus (BIV); and simian immunodeficiency virus (SIV). In various embodiments, a lentiviral vector contemplated herein comprises one or more LTRs, and one or more of the following accessory elements: a cPPT/FLAP, a Psi packaging signal, an export element, polyA sequences, and may optionally comprise a WPRE or HPRE, an insulator element, a selectable marker, and a cell suicide gene. In particular embodiments, lentiviral vectors contemplated herein may be integrative or non-integrating or integration defective lentivirus (e.g., having an integrase that lacks the capacity to integrate the viral genome into the genome of the host cells. Integrationincompetent viral vectors have been described in patent application WO 2006/010834, which is herein incorporated by reference in its entirety.
[0161] In particular embodiments, expression of heterologous sequences in viral vectors is increased by incorporating post-transcriptional regulatory elements, efficient polyadenylation sites, and optionally, transcription termination signals into the vectors. A variety of posttranscriptional regulatory elements can increase expression of a heterologous polynucleotide at the protein, e.g., woodchuck hepatitis vims posttranscriptional regulatory element (WPRE; Zufferey et al., 1999, J. Virol., 73:2886); the posttranscriptional regulatory element present in hepatitis B vims (HPRE) (Huang el al, Mol. Cell. Biol., 5:3864); and the like (Liu el al, 1995, Genes Dev., 9: 1766).
[0162] In some embodiments, the vector comprising a polynucleotide encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same described herein is a plasmid. Numerous suitable plasmid expression vectors are known to those of skill in the art, and many are commercially available. The following vectors are provided by way of example; for eukaryotic host cells: pXT1 , pSG5 (Stratagene), pSVK3, pBPV, pMSG, and pSVLSV40 (Pharmacia). However, any other plasmid vector may be used so long as it is compatible with the host cell. Depending on the cell type utilized, any of a number of suitable transcription and translation
control elements, including constitutive and inducible promoters, transcription enhancer elements, transcription terminators, etc. may be used in the expression vector (see e.g., Bitter et al. (1987) Methods in Enzymology, 153:516-544).
[0163] In some embodiments, a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to a control element, e.g., a transcriptional control element, such as a promoter. The transcriptional control element may be functional in either a eukaryotic cell (e.g., a mammalian cell) or a prokaryotic cell (e.g., bacterial or archaeal cell). In some embodiments, a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to multiple control elements that allow expression of the polynucleotide in both prokaryotic and eukaryotic cells. Depending on the cell type utilized, any of a number of suitable transcription and translation control elements, including constitutive and inducible promoters, transcription enhancer elements, transcription terminators, etc. may be used in the expression vector (see e.g., Bitter et al. (1987) Methods in Enzymology, 153:516-544).
[0164] Non-limiting examples of suitable eukaryotic promoters (promoters functional in a eukaryotic cell) include those from cytomegalovirus (CMV) immediate early, herpes simplex virus (HSV) thymidine kinase, early and late SV40, long terminal repeats (LTRs) from retrovirus, and mouse metallothionein-l. Selection of the appropriate vector and promoter is well within the level of ordinary skill in the art. The expression vector may also contain a ribosome binding site for translation initiation and a transcription terminator. The expression vector may also include appropriate sequences for amplifying expression. The expression vector may also include nucleotide sequences encoding protein tags (e.g., 6xHis tag, hemagglutinin tag, green fluorescent protein, etc.) that are fused to the Nectin-4 binding agent or multi-specific binding agent comprising the same, thus resulting in a chimeric polypeptide.
[0165] In some embodiments, a polynucleotide sequence encoding a Nectin-4 binding agent or multi-specific binding agent comprising the same is operably linked to an inducible or a constitutive promoter.
[0166] A number of transfection techniques are generally known in the art (see, e.g., Graham et al., Virology, 52: 456-467 (1973); Sambrook et al., supra; Davis et al., Basic Methods in Molecular Biology, Elsevier (1986); and Chu et al., Gene, 13: 97 (1981). Transfection methods include calcium phosphate co-precipitation (see, e.g., Graham et al., supra), direct micro injection into cultured cells (see, e.g., Capecchi, Cell, 22: 479-488 (1980)), electroporation (see, e.g., Shigekawa et al., BioTechniques, 6: 742-751 (1988)), liposome mediated gene transfer (see, e.g., Mannino et al., BioTechniques, 6: 682-690 (1988)), lipid mediated transduction (see, e.g., Feigner
et al., Proc. Natl. Acad. Sci. USA, 84: 7413-7417 (1987)), and nucleic acid delivery using high velocity microprojectiles (see, e.g., Klein et al., Nature, 327: 70-73 (1987)).
[0167] In an embodiment, the vectors provided by the present disclosure can be prepared using standard techniques described in, for example, Sambrook et al., supra, and Ausubel et al., supra. Constructs of expression vectors, which are circular or linear, can be prepared to contain a replication system functional in a prokaryotic or eukaryotic host cell, Replication systems can be derived, e.g., from ColEI, 2 plasmid, A, SV40, bovine papilloma virus, and the like.
[0168] The vector may comprise regulatory sequences, such as transcription and translation initiation and termination codons, which are specific to the type of host cell (e.g., bacterium, fungus, plant, or animal) into which the vector is to be introduced, as appropriate, and taking into consideration whether the vector is DNA- or RNA-based. The expression vector may comprise restriction sites to facilitate cloning.
[0169] The vector can include one or more marker genes, which allow for selection of transformed or transfected host cells. Marker genes include biocide resistance, e.g., resistance to antibiotics, heavy metals, etc., complementation in an auxotrophic host to provide prototrophy, and the like. Suitable marker genes for the inventive expression vectors include, for instance, neomycin/G418 resistance genes, hygromycin resistance genes, histidinol resistance genes, tetracycline resistance genes, and ampicillin resistance genes.
[0170] The vectors can be designed for either transient expression, for stable expression, or for both, of the polynucleotides comprised therein. Also, the vectors can be made for constitutive expression or for inducible expression of the polynucleotides comprised therein.
Pharmaceutical Compositions
[0171] In some embodiments, the present disclosure provides compositions comprising the Nectin-4 binding agents and/or multi-specific binding agents described herein. In some embodiments, the present disclosure provides pharmaceutical compositions comprising the Nectin-4 binding agents and/or multi-specific binding agents described herein and a pharmaceutically-acceptable excipient.
[0172] Typically, formulations include all physiologically acceptable compositions including derivatives and/or prodrugs, solvates, stereoisomers, racemates, or tautomers thereof with any physiologically acceptable carriers, diluents, and/or excipients. A “therapeutic composition” or “pharmaceutical composition” (used interchangeably herein) is a composition capable of being administered to a subject for the treatment of a particular disease or disorder.
[0173] The phrase “pharmaceutically acceptable” is employed herein to refer to those compounds, materials, compositions, and/or dosage forms which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of human beings and animals without excessive toxicity, irritation, allergic response, or other problem or complication, commensurate with a reasonable benefit/risk ratio.
[0174] As used herein “pharmaceutically acceptable carrier, diluent or excipient” includes without limitation any adjuvant, carrier, excipient, glidant, sweetening agent, diluent, preservative, dye/colorant, flavor enhancer, surfactant, wetting agent, dispersing agent, suspending agent, stabilizer, isotonic agent, solvent, surfactant, and/or emulsifier which has been approved by the United States Food and Drug Administration as being acceptable for use in humans and/or domestic animals. Exemplary pharmaceutically acceptable carriers include, but are not limited to, to sugars, such as lactose, glucose and sucrose; starches, such as corn starch and potato starch; cellulose, and its derivatives, such as sodium carboxymethyl cellulose, ethyl cellulose and cellulose acetate; tragacanth; malt; gelatin; talc; cocoa butter, waxes, animal and vegetable fats, paraffins, silicones, bentonites, silicic acid, zinc oxide; oils, such as peanut oil, cottonseed oil, safflower oil, sesame oil, olive oil, com oil and soybean oil; glycols, such as propylene glycol; polyols, such as glycerin, sorbitol, mannitol and polyethylene glycol; esters, such as ethyl oleate and ethyl laurate; agar; buffering agents, such as magnesium hydroxide and aluminum hydroxide; alginic acid; pyrogen- free water; isotonic saline; Ringer’s solution; ethyl alcohol; phosphate buffer solutions; and any other compatible substances employed in pharmaceutical formulations. Except insofar as any conventional media and/or agent is incompatible with the agents of the present disclosure, its use in therapeutic compositions is contemplated. Supplementary active ingredients also can be incorporated into the compositions.
[0175] “Pharmaceutically acceptable salt” includes both acid and base addition salts. Pharmaceutically-acceptable salts include the acid addition salts (formed with the free amino groups of the protein) and which are formed with inorganic acids such as, for example, hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, phosphoric acid and the like, and organic acids such as, but not limited to, acetic acid, 2,2-dichloroacetic acid, adipic acid, alginic acid, ascorbic acid, aspartic acid, benzenesulfonic acid, benzoic acid, 4-acetamidobenzoic acid, camphoric acid, camphor-10-sulfonic acid, capric acid, caproic acid, caprylic acid, carbonic acid, cinnamic acid, citric acid, cyclamic acid, dodecylsulfuric acid, ethane-1 ,2-disulfonic acid, ethanesulfonic acid, 2-hydroxyethanesulfonic acid, formic acid, fumaric acid, galactaric acid, gentisic acid, glucoheptonic acid, gluconic acid, glucuronic acid, glutamic acid, glutaric acid, 2- oxo-glutaric acid, glycerophosphoric acid, glycolic acid, hippuric acid, isobutyric acid, lactic acid,
lactobionic acid, lauric acid, maleic acid, malic acid, malonic acid, mandelic acid, methanesulfonic acid, mucic acid, naphthalene-1 ,5-disulfonic acid, naphthalene-2-sulfonic acid, 1-hydroxy-2- naphthoic acid, nicotinic acid, oleic acid, orotic acid, oxalic acid, palmitic acid, pamoic acid, propionic acid, pyroglutamic acid, pyruvic acid, salicylic acid, 4-aminosalicylic acid, sebacic acid, stearic acid, succinic acid, tartaric acid, thiocyanic acid, ptoluenesulfonic acid, trifluoroacetic acid, undecylenic acid, and the like. Salts formed with the free carboxyl groups can also be derived from inorganic bases such as, for example, sodium, potassium, lithium, ammonium, calcium, magnesium, iron, zinc, copper, manganese, aluminum salts and the like. Salts derived from organic bases include, but are not limited to, salts of primary, secondary, and tertiary amines, substituted amines including naturally occurring substituted amines, cyclic amines and basic ion exchange resins, such as ammonia, isopropylamine, trimethylamine, diethylamine, triethylamine, tripropylamine, diethanolamine, ethanolamine, deanol, 2-dimethylaminoethanol, 2- diethylaminoethanol, dicyclohexylamine, lysine, arginine, histidine, caffeine, procaine, hydrabamine, choline, betaine, benethamine, benzathine, ethylenediamine, glucosamine, methylglucamine, theobromine, triethanolamine, tromethamine, purines, piperazine, piperidine, N-ethylpiperidine, polyamine resins and the like. Particularly preferred organic bases are isopropylamine, diethylamine, ethanolamine, trimethylamine, dicyclohexylamine, choline and caffeine.
[0176] Wetting agents, emulsifiers and lubricants, such as sodium lauryl sulfate and magnesium stearate, as well as coloring agents, release agents, coating agents, sweetening, flavoring and perfuming agents, preservatives and antioxidants can also be present in the compositions.
[0177] Examples of pharmaceutically-acceptable antioxidants include: (1) water soluble antioxidants, such as ascorbic acid, cysteine hydrochloride, sodium bisulfate, sodium metabisulfite, sodium sulfite and the like; (2) oil-soluble antioxidants, such as ascorbyl palmitate, butylated hydroxyanisole (BHA), butylated hydroxytoluene (BHT), lecithin, propyl gallate, alphatocopherol, and the like; and (3) metal chelating agents, such as citric acid, ethylenediamine tetraacetic acid (EDTA), sorbitol, tartaric acid, phosphoric acid, and the like.
[0178] Further guidance regarding formulations that are suitable for various types of administration can be found in Remington’s Pharmaceutical Sciences, Mace Publishing Company, Philadelphia, Pa., 17th ed. (1985). For a brief review of methods for drug delivery, see, Langer, Science 249:1527-1533 (1990).
Method of producing Nectin-4 binding agents
[0179] In some embodiments, the present disclosure provides a method of producing the Nectin- 4 binding agents and multi-specific binding agents comprising the same comprising introducing a polynucleotide encoding the Nectin-4 binding agent or a vector comprising the same into a host cell, culturing the host cell under conditions suitable for expression of the Nectin-4 binding agent, and purifying the expressed Nectin-4 binding agent from the culture supernatant.
[0180] Exemplary host cells suitable for use in the manufacture of the binding agents described herein are known in the art, for example, a host cell can be a eukaryotic cell, e.g., plant, animal, fungi, or algae, or can be a prokaryotic cell, e.g., bacteria or protozoa. The host cell can be a cultured cell or a primary cell, i.e., isolated directly from an organism, e.g., a human. The host cell can be an adherent cell or a suspended cell, i.e., a cell that grows in suspension. Suitable host cells are known in the art and include, for instance, DK5a E. coli cells, Chinese hamster ovarian cells, monkey VERO cells, COS cells, HEK293 cells, and the like. For purposes of amplifying or replicating the expression vector, the host cell may be a prokaryotic cell, e.g., a DH5a cell. For the purposes of producing a binding agent, the host cell may be a mammalian cell. In some embodiments, the present disclosure provides a host cell comprising a polynucleotide described herein or vector comprising the same.
[0181] Suitable methods of making antibodies, including single domain antibodies, are known in the art. For instance, standard hybridoma methods are described in, e.g., Kohler and Milstein, Eur. J. Immunol. 5, 511-519 (1976), Harlow and Lane (eds.), Antibodies: A Laboratory Manual, CSH Press (1988), and C.A. Janeway et al. (eds,), Immumobiology, 5th Ed., Garland Publishing, New York, NY (2001). Alternatively, other methods, such as EBV-hybridoma methods (Haskard and Archer, J. Immunol. Methods, 74(2), 361-67 (1984), and Roder et al., Methods Enzymol., 121 , 140-67 (1986)), and bacteriophage vector expression systems (see, e.g., Huse et al, Science, 246, 1275-81 (1989)) are known in the art. Further, methods of producing antibodies in non-human animals are described in, e.g., U.S. Patents 5,545,806, 5,569,825, and 5,714,352, U.S. Patent Application Publication No. 2002/0197266, and U.S. Patent No. 7,338,929).
[0182] Antibodies can be produced by transgenic mice that are transgenic for specific heavy and light chain immunoglobulin genes. Such methods are known in the art and described in, for example U.S. Patents 5,545,806 and 5,569,825, and Janeway et al., supra.
[0183] Methods for generating humanized antibodies an antigen-binding fragments thereof are well known in the art and are described in detail in, for example, Janeway et al., supra, U.S. Patents 5,225,539, 5,585,089 and 5,693,761 , European Patent No. 0239400 Bl, and United Kingdom Patent No. 2188638. Humanized antibodies can also be generated using the antibody
resurfacing technology described in U.S. Patent 5,639,641 and Pedersen et al., J. Mol. Biol., 235, 959-973 (1994).
[0184] Multi-specific binding agents of the invention are typically produced recombinantly, i.e. by expression of polynucleotides encoding the multi-specific binding agents in suitable host cells, followed by purification of the produced recombinant multi-specific binding agent from the cell culture. Polynucleotides can be produced by standard molecular biological techniques well-known in the art. The polynucleotides are typically introduced into the host cell using an expression vector. Suitable nucleic acid constructs and expression vectors are known in the art. Host cells suitable for the recombinant expression of antibodies are well-known in the art, and include CHO (Chinese Hamster Ovary), HEK-293, Expi293F, PER-C6, NS/0 and Sp2/0 cells.
[0185] Accordingly, in a further embodiment, the invention relates to a polynucleotide encoding a binding agent of the invention, such as multi-specific binding agent according to the invention. In one embodiment, the polynucleotide is a DNA construct. In another embodiment, the polynucleotide is an RNA construct. The polynucleotide typically further comprises a promoter.
[0186] In a further embodiment, the invention relates to an expression vector comprising a polynucleotide encoding a multi-specific binding agent according to the invention. The expression vector typically further comprises a promoter.
[0187] In a further embodiment, the invention relates to a host cell, such as a non-human host cell, for example a CHO cell, comprising one or more polynucleotides encoding a multi-specific binding agent according to the invention or an expression vector comprising a polynucleotide encoding a multi-specific binding agent according to the invention.
Method of Treatment
[0188] In some embodiments, the present disclosure provides a method of treating cancer in a subject in need thereof comprising administering a Nectin-4 binding agent described herein, a multi-specific binding agent comprising the same, or a composition comprising the same.
[0189] In some embodiments, treatment comprises delivering an effective amount of a Nectin-4 binding agent or multi-specific binding agent comprising the same, or a composition thereof, to a subject in need thereof. In some embodiments, treating refers to the treatment of a cancer in a mammal, e.g., in a human, including (a) inhibiting the cancer, i.e., arresting cancer development or preventing cancer progression; (b) relieving the cancer, i.e., causing regression of the cancer state or relieving one or more symptoms of the cancer; and (c) curing the cancer, i.e., remission of one or more cancer symptoms. In some embodiments, treatment may refer to a short-term (e.g., temporary and/or acute) and/or a long-term (e.g., sustained) reduction in one or more
cancer symptoms. In some embodiments, treatment results in an improvement or remediation of the symptoms of the cancer. The improvement is an observable or measurable improvement, or may be an improvement in the general feeling of well-being of the subject.
[0190] An “effective amount” or “an amount effective to treat” refers to a dose that is adequate to prevent or treat cancer in an individual. In some embodiments, an effective amount is also one in which any toxic or detrimental effects of the antibody are outweighed by the therapeutically beneficial effects. The effective amount of a Nectin-4 binding agent or multi-specific binding agent, or a composition comprising the same administered to a particular subject will depend on a variety of factors, several of which will differ from patient to patient including the disorder being treated and the severity of the disorder; activity of the specific agent(s) employed; the age, body weight, general health, sex and diet of the patient; the timing of administration, route of administration; the duration of the treatment; the ability of the binding agent or multi-specific binding agent comprising the same to elicit a desired response in the individual; drugs used in combination; the judgment of the prescribing physician; and like factors known in the medical arts. The size of the dose will also be determined by the existence, nature, and extent of any adverse side- effects that might accompany the administration of a particular active, and the desired physiological effect. It will be appreciated by one of skill in the art that various diseases or disorders could require prolonged treatment involving multiple administrations, perhaps using various rounds of administration.
[0191] The cancer can be any cancer, including any of acute lymphocytic cancer, acute myeloid leukemia (AML), alveolar rhabdomyosarcoma, B-cell chronic lymphoproliferative disorders, bladder cancer (e.g., bladder carcinoma), blastic plasmacytoid dendritic cell neoplasm, bone cancer, brain cancer (e.g., medulloblastoma), breast cancer, cancer of the anus, anal canal, or anorectum, cancer of the eye, cancer of the intrahepatic bile duct, cancer of the joints, cancer of the neck, gallbladder, or pleura, cancer of the nose, nasal cavity, or middle ear, cancer of the oral cavity, cancer of the vulva, chronic lymphocytic leukemia, chronic myeloid cancer, colon cancer, esophageal cancer, cervical cancer, fibrosarcoma, gastrointestinal carcinoid tumor, head and neck cancer (e.g., head and neck squamous cell carcinoma), Hodgkin lymphoma, hypopharynx cancer, kidney cancer, larynx cancer, leukemia, liquid tumors, liver cancer, lung cancer (e.g., nonsmall cell lung carcinoma and lung adenocarcinoma), lymphoma, mesothelioma, mastocytoma, melanoma, multiple myeloma, myelodysplastic syndrome, nasopharynx cancer, non-Hodgkin lymphoma, B-cell chronic lymphocytic leukemia, hairy cell leukemia, acute lymphocytic leukemia (ALL), Burkitt’s lymphoma, ovarian cancer, pancreatic cancer, peritoneum, omentum, and mesentery cancer, pharynx cancer, prostate cancer, rectal cancer, renal cancer, skin cancer,
small intestine cancer, soft tissue cancer, solid tumors, synovial sarcoma, gastric cancer, testicular cancer, thyroid cancer, and ureter cancer.
[0192] Exemplary expression of Nectin-4 in certain isolated patient samples are shown in FIG. 1A In some embodiments, the cancer is a leukemia. In some embodiments, the cancer is acute myeloid leukemia. In some embodiments, the cancer is a head and neck cancer. In some embodiments, the cancer is a bladder cancer. In some embodiments, the bladder cancer is a urothelial cancer. In some embodiments, the cancer is choriocarcinoma. In some embodiments, the cancer is epidermoid carcinoma. In some embodiments, the cancer is colorectal adenocarcinoma.
[0193] In some embodiments, the cancer is characterized by the expression of Nectin-4. For example, in some embodiments, the cancer is selected from metastatic colorectal cancer, clear cell renal cell cancer, glioblastoma multiforme, adenocarcinoma, squamous cell carcinoma, head & neck cancer, primary colorectal cancer, esophagus carcinoma, and urothelial cell carcinoma.
[0194] In some embodiments, the cancer is selected from bladder cancer (such as bladder urothelial cancer), breast cancer (such as triple negative breast cancer), renal cancer, prostate cancer, ovarian cancer, esophageal cancer, head and neck cancer, lung cancer, pancreatic cancer, gastric cancer, thyroid cancer, colorectal cancer, cholangiocarcinoma and uterine corpus endometrial carcinoma.
[0195] “Treatment” or “treating” refers to the administration of an effective amount of a binding agent or multi-specific binding agent comprising the same according to the present disclosure with the purpose of easing, ameliorating, arresting, eradicating (curing) or preventing symptoms or disease states.
[0196] In some embodiments, the subject may be a neonate, a juvenile, or an adult. Of particular interest are mammalian subjects. Mammalian species that may be treated with the present methods include canines and felines; equines; bovines; ovines; etc. and primates, particularly humans. Animal models, particularly small mammals (e.g. mice, rats, guinea pigs, hamsters, rabbits, etc.) may be used for experimental investigations.
[0197] In some embodiments, the present disclosure provides methods of expanding Vy9V62 T cells comprising contacting the Vy9V62 T cells with a Nectin-4 binding agent described herein, a multi-specific binding agent comprising the same, or a composition comprising the same. In some embodiments, the contacting is in vitro, in vivo, or ex vivo. Expansion of Vy9V52 T cells may be measured by any method known in the art (e.g., labeling with a suitable agent such as carboxyfluorescein succinimidyl ester followed by quantification of fluorescence by e.g., flow cytometry).
[0198] Administration of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, can occur by injection, irrigation, inhalation, consumption, electro-osmosis, hemodialysis, iontophoresis, and other methods known in the art. In some embodiments, administration route is local or systemic. In some embodiments administration route is intraarterial, intracranial, intradermal, intraduodenal, intramammary, intrameningeal, intraperitoneal, intrathecal, intratumoral, intravenous, intravitreal, ophthalmic, parenteral, spinal, subcutaneous, ureteral, urethral, vaginal, intramuscular, inhalation, oral, or intrauterine.
[0199] In some embodiments, the administration route is by infusion (e.g., continuous or bolus). Examples of methods for local administration, that is, delivery to the site of injury or disease, include through an Ommaya reservoir, e.g. for intrathecal delivery (See e.g., US Patent Nos. 5,222,982 and 5,385,582, incorporated herein by reference); by bolus injection, e.g. by a syringe, e.g. into a joint; by continuous infusion, e.g. by cannulation, such as with convection (See e.g., US Patent Application Publication No. 2007-0254842, incorporated herein by reference); or by implanting a device upon which the binding agents have been reversibly affixed (see e.g. US Patent Application Publication Nos. 2008-0081064 and 2009-0196903, incorporated herein by reference). In some embodiments, the administration route is by topical administration or direct injection. In some embodiments, the binding agents described herein may be provided to the subject alone or with a suitable substrate or matrix.
[0200] In some embodiments, at least 0.01 pg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, is administered to a subject. In some embodiments, between about 0.01 pg/kg and about lOOmg/kg, between about 0.1 pg/kg and about 50 mg/kg, between about 0.01 mg/kg and about 20 mg/kg, or between about 0.01 mg/kg and about 10 mg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, is administered to a subject. In some embodiments, at least about 0.01 mg/kg, at least about 0.03 mg/kg, at least about 0.05 mg/kg, at least about 0.1 mg/kg, about 0.3 mg/kg, about 0.5 mg/kg, about 1 mg/kg, about 3 mg/kg, about 5 mg/kg, about 8 mg/kg, or about 10 mg/kg of the Nectin-4 binding agent or multi-specific binding agent, or of a composition comprising the same, is administered to the subject. In some embodiments, at least 0.1 , 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1.0, 1.5, 2, 2.5, 3, 3.5, 4, 4.5, 5, 5.5, 6, 6.5, 7, 7.5, 8, 8.5, 9, 9.5, 10, 11.0, 11.5, 12, 12.5, 13, 13.5, 14, 14.5, 15, 15.5, 16, 16.5, 17, 17.5, 18, 18.5, 19, 19.5, 20, 21 , 22, 23, 24, 25, 26, 27, 28, 29, 30, 31 , 32, 33, 34, 35, 36, 37, 38, 39, 40, 41 , 42, 43, 44, 45, 46, 47, 48, 49, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 110, 120, 130, 140, 150, 160, 170, 180, 190, 200, 225, 250, 275, 300, 325, 350, 375, 400, 425, 450, 475, or at least 500 nM of the Nectin-4 binding
agent or multi-specific binding agent, or of a composition comprising the same, is administered to a subject.
[0201] The number of administrations of treatment to a subject may vary. In some embodiments, administration to the subject may be a one-time event. In some embodiments, such treatment may require an on-going series of repeated treatments. In some embodiments, multiple administrations may be required before an effect is observed. The exact protocols depend upon the disease or condition, the stage of the disease and parameters of the individual subject being treated.
[0202] In some embodiments, the effective amount of a Nectin-4 binding agent, a multi-specific binding agent comprising the same, or a composition comprising the same may be the amount required to result in at least 1 , 2, 3, 4, 5, 6, 7, 8, 9, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100, or more fold decrease in tumor mass or volume, decrease in the number of tumor cells, or decrease in the number of metastases. In some embodiments, the effective amount of a Nectin-4 binding agent, a multi-specific binding agent comprising the same, or a composition comprising the same may be the amount required to achieve an increase in life expectancy, an increase in progression-free or disease-free survival, or amelioration of various physiological symptoms associated with the disease being treated.
[0203] In some embodiments, the methods of treatment provided herein further comprise the administration of one or more additional therapeutic agents. The one or more additional therapeutic agents can be administered prior to, simultaneously with, or after the Nectin-4 binding agent or multi-specific binding agent comprising the same, or composition comprising the same described herein. In some embodiments, the additional therapeutic agent is IL-2 or IL-15.
[0204] In some embodiments, the additional therapeutic agent is IL-2. In some embodiments, the IL-2 is Aldesleukin/Proleukin. Other suitable forms of IL-2 include NKTR-214 (Bempegaldesleukin/Nektar), ALK 4230 (nemvaleukin/Aalkermes-Reliant), SAR444245 - THOR 707/Synthorx/Sanofi) and XTX-202 (Xilio). In some embodiments, the IL-2 is a variant IL-2. In some embodiments, the variant IL-2 binds to the IL-2Rbeta and gamma chains, but does not bind or demonstrates reduced/abrogated binding to the IL-2Ralpha chain (e.g. NL201 from Neoleukin, Silva et al. De novo design of potent and selective mimics of IL-2 and IL-15. Nature 565, 186-191 (2019), and MDNA11 from Medicenna). In some embodiments, the IL-2 and/or variants thereof is pegylated.
[0205] In some embodiments, the additional therapeutic agent is IL-15. Suitable forms of IL-15 are known in the art. See e.g., Int J Mol Sci. 2022 Jul; 23(13): 7311 , which is herein incorporated by reference in its entirety. In some embodiments, the IL-15 is a heterodimer of IL-15 and IL-15
receptor alpha (hetlL-15), which is also referred to as NIZ985. In some embodiments, the IL-15 is N-803, formerly known as ALT-803, which is an IL-15 variant complexed with a human IL-15Ra sushi domain-Fc fusion protein. In some embodiments, the IL-15 is SOT101 , also referred to as Nanrilkefusp alfa, which is a human fusion protein comprising the cytokine IL-15 and the high- affinity binding sushi+ domain of IL-15 receptor alpha (IL-15Ra). In some embodiments, the IL-15 is NKTR-255, which is a polyethylene glycol-conjugate of rhlL-15. In some embodiments, the IL- 15 and/or variants thereof is pegylated.
Exemplary Multi-specific Binding Agents
[0206] In some embodiments, the present disclosure provides a multi-specific binding agent comprising a first antigen-binding domain that binds to Nectin-4 and a second antigen-binding domain that binds to V52. In some embodiments, the first and second antigen-binding domains are comprised in the same polypeptide chain. In some embodiments, the multi-specific binding agent comprises the following format, from N’ to C’ terminus: first antigen-binding domain - linker - second antigen-binding domain. In some embodiments, the multi-specific binding agent comprises the following format, from N’ to C’ terminus: second antigen-binding domain - linker — first antigen-binding domain. In some embodiments, the linker is a glycine-serine linker. In some embodiments, the linker is G4S and comprises SEQ ID NO: 254.
[0207] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 4. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 4. In some embodiments, the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 281. In some embodiments, the multi-specific binding agent comprises SEQ ID NO: 281. In some
embodiments, the multi-specific binding agent consists of SEQ ID NO: 281. Such a multi-specific binding agent is referred to herein as LAVA-366.
[0208] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 4. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 4. In some embodiments, the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 282. In some embodiments, the multi-specific binding agent comprises SEQ ID NO: 282. In some embodiments, the multi-specific binding agent consists of SEQ ID NO: 282. Such a multi-specific binding agent is referred to herein as LAVA-367.
[0209] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3. In some embodiments, the first antigenbinding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 4. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 4. In some embodiments, the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least
96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 283. In some embodiments, the multi-specific binding agent comprises SEQ ID NO: 283. In some embodiments, the multi-specific binding agent consists of SEQ ID NO: 283. Such a multi-specific binding agent is referred to herein as LAVA-368.
[0210] In some embodiments, the multi-specific binding agent comprises (i) a first antigen-binding domain comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and (ii) a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 1 , a CDR2 of SEQ ID NO: 2 and a CDR3 of SEQ ID NO: 3. In some embodiments, the first antigenbinding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 4. In some embodiments, the first antigen-binding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 4. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 4. In some embodiments, the multi-specific binding agent comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 284. In some embodiments, the multi-specific binding agent comprises SEQ ID NO: 284. In some embodiments, the multi-specific binding agent consists of SEQ ID NO: 284. Such a multi-specific binding agent is referred to herein as LAVA-369.
[0211] Exemplary embodiments of such single chain multi-specific binding agents are provided in TABLE 8.
[0212] In some embodiments the multi-specific binding agent further comprises one or more Fc domains. In such embodiments, the multi-specific binding agent comprises a first and a second polypeptide, wherein the first polypeptide comprises a first antigen-binding domain that binds to Nectin-4 and a first Fc domain monomer, and wherein the second polypeptide comprises a second antigen-binding domain and a second Fc domain monomer. The Fc domain monomers associate to form a dimeric multi-specific binding agent. In some embodiments, the Fc domain monomers comprise one or more mutations to facilitate dimerization and/or reduce effector function.
[0213] Exemplary embodiments of such first and second polypeptides are provided below in TABLE 9. Antigen-binding domains are shown in underlined text. Hinges are shown in italicized and bolded text. Fc domains are shown in regular text. For all of the Nectin-4 VHH - Fc fusion proteins, the Fc domain corresponds to SEQ ID NO: 229 or 231 (/.e., effector mutations + hole mutations, w/ or w/o a C-terminal lysine). For all of the V62 VHH - Fc fusions proteins, the Fc domain corresponds to SEQ ID NO: 228 or 230 (/.e., effector mutations + knob mutations, w/ or w/o a C-terminal lysine).
[0214] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 8. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 8. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 270 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278. In some embodiments, the first polypeptide comprises SEQ ID NO: 270 and the second polypeptide comprises SEQ ID NO: 278. In some embodiments, the first polypeptide consists of SEQ ID NO: 270 and the second polypeptide consists of SEQ ID NO: 278. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 269 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to
SEQ ID NO: 277. In some embodiments, the first polypeptide comprises SEQ ID NO: 269 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 269 and the second polypeptide consists of SEQ ID NO: 277.
[0215] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 8. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 8. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 268 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278. In some embodiments, the first polypeptide comprises SEQ ID NO: 268 and the second polypeptide comprises SEQ ID NO: 278. In some embodiments, the first polypeptide consists of SEQ ID NO: 268, referred to herein as LAVA-387, and the second polypeptide consists of SEQ ID NO: 278, referred to herein as LAVA-349. Such a multi-specific binding agent is referred to herein as LAVA-1387. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 267 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least
97%, at least 98%, or at least 99% identical to SEQ ID NO: 277. In some embodiments, the first polypeptide comprises SEQ ID NO: 267 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 267 and the second polypeptide consists of SEQ ID NO: 277.
[0216] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 8. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 8. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 272 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278. In some embodiments, the first polypeptide comprises SEQ ID NO: 272 and the second polypeptide comprises SEQ ID NO: 278. In some embodiments, the first polypeptide consists of SEQ ID NO: 278 and the second polypeptide consists of SEQ ID NO: 278. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 271 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to
SEQ ID NO: 277. In some embodiments, the first polypeptide comprises SEQ ID NO: 271 and the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 271 and the second polypeptide consists of SEQ ID NO: 277.
[0217] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 8. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 8. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 274 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278. In some embodiments, the first polypeptide comprises SEQ ID NO: 274 and the second polypeptide comprises SEQ ID NO: 278. In some embodiments, the first polypeptide consists of SEQ ID NO: 274 and the second polypeptide consists of SEQ ID NO: 278. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 273 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277. In some embodiments, the first polypeptide comprises SEQ ID NO: 273 and
the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 273 and the second polypeptide consists of SEQ ID NO: 277.
[0218] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 5, a CDR2 of SEQ ID NO: 6 and a CDR3 of SEQ ID NO: 7 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 99 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 8. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 8. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 99 and the second antigen-binding domain consists of SEQ ID NO: 8. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or 231. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 276 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 278. In some embodiments, the first polypeptide comprises SEQ ID NO: 276 and the second polypeptide comprises SEQ ID NO: 278. In some embodiments, the first polypeptide consists of SEQ ID NO: 276 and the second polypeptide consists of SEQ ID NO: 278. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 275 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 277. In some embodiments, the first polypeptide comprises SEQ ID NO: 275 and
the second polypeptide comprises SEQ ID NO: 277. In some embodiments, the first polypeptide consists of SEQ ID NO: 275 and the second polypeptide consists of SEQ ID NO: 277.
[0219] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 88, a CDR2 of SEQ ID NO: 89 and a CDR3 of SEQ ID NO: 90 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 91 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 91 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 91 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 270 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280. In some embodiments, the first polypeptide comprises SEQ ID NO: 270 and the second polypeptide comprises SEQ ID NO: 280. In some embodiments, the first polypeptide consists of SEQ ID NO: 270 and the second polypeptide consists of SEQ ID NO: 280. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 269 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279. In some embodiments, the first polypeptide comprises SEQ ID NO: 269 and
the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 269 and the second polypeptide consists of SEQ ID NO: 279.
[0220] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 98 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 98 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 98 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 268 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280. In some embodiments, the first polypeptide comprises SEQ ID NO: 268 and the second polypeptide comprises SEQ ID NO: 280. In some embodiments, the first polypeptide consists of SEQ ID NO: 268 and the second polypeptide consists of SEQ ID NO: 280. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 267 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279. In some embodiments, the first polypeptide comprises SEQ ID NO: 267 and
the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 267 and the second polypeptide consists of SEQ ID NO: 279.
[0221] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 103, a CDR2 of SEQ ID NO: 104 and a CDR3 of SEQ ID NO: 105 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 106 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 106 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 106 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 272 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280. In some embodiments, the first polypeptide comprises SEQ ID NO: 272 and the second polypeptide comprises SEQ ID NO: 280. In some embodiments, the first polypeptide consists of SEQ ID NO: 272 and the second polypeptide consists of SEQ ID NO: 280. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 271 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279. In some embodiments, the first polypeptide comprises SEQ ID NO: 271 and
the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 271 and the second polypeptide consists of SEQ ID NO: 279.
[0222] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 110, a CDR2 of SEQ ID NO: 111 and a CDR3 of SEQ ID NO: 112 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 113 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 113 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 113 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 274 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280. In some embodiments, the first polypeptide comprises SEQ ID NO: 274 and the second polypeptide comprises SEQ ID NO: 280. In some embodiments, the first polypeptide consists of SEQ ID NO: 274 and the second polypeptide consists of SEQ ID NO: 280. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 273 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 279. In some embodiments, the first polypeptide comprises SEQ ID NO: 273 and
the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 273 and the second polypeptide consists of SEQ ID NO: 279.
[0223] In some embodiments, the multi-specific binding agent comprises (i) a first polypeptide comprising a first antigen-binding domain that binds Nectin-4 comprising a CDR1 of SEQ ID NO: 95, a CDR2 of SEQ ID NO: 96 and a CDR3 of SEQ ID NO: 97 and a first Fc domain monomer; and (ii) a second polypeptide comprising a second antigen-binding domain comprising a CDR1 of SEQ ID NO: 18, a CDR2 of SEQ ID NO: 19 and a CDR3 of SEQ ID NO: 20 and a second Fc domain monomer. In some embodiments, the first antigen-binding domain comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 99 and the second antigen-binding domain comprises an amino acid sequence that this at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 22. In some embodiments, the first antigenbinding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 22. In some embodiments, the first antigen-binding domain consists of SEQ ID NO: 99 and the second antigen-binding domain consists of SEQ ID NO: 22. In some embodiments, the first Fc domain monomer comprises SEQ ID NO: 228 or 230 and the second Fc domain monomer comprises SEQ ID NO: 229 or231. In some embodiments, the first Fcdomain monomer comprises SEQ ID NO: 229 or 231 and the second Fc domain monomer comprises SEQ ID NO: 228 or 230. In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 276 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 280. In some embodiments, the first polypeptide comprises SEQ ID NO: 276 and the second polypeptide comprises SEQ ID NO: 280. In some embodiments, the first polypeptide consists of SEQ ID NO: 276, referred to herein as LAVA-427 and the second polypeptide consists of SEQ ID NO: 280, referred to herein as LAVA-448. Such a multi-specific binding agent is referred to herein as LAVA-1427.
[0224] In some embodiments, the first polypeptide comprises an amino acid sequence that is at least 90%, at least 91 %, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO: 275 and the second polypeptide comprises an amino acid sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to
SEQ ID NO: 279. In some embodiments, the first polypeptide comprises SEQ ID NO: 275 and the second polypeptide comprises SEQ ID NO: 279. In some embodiments, the first polypeptide consists of SEQ ID NO: 275 and the second polypeptide consists of SEQ ID NO: 279.
EXAMPLES
Example 1 : Generation of anti-Nectin-4 binding agents
[0225] Lama glama (2 animals) were immunized with 4 injections of HepG2 cells (day 0, 14, 28 and 35) followed by 2 injections of human Nectin-4 protein (Sino Biologies) on days 49 and 63. Serum was collected before and after immunization and sera were tested for the presence of anti- Nectin-4 antibodies by ELISA.
[0226] After confirmation of a Nectin-4 specific immune response, a whole blood sample was collected for peripheral blood lymphocyte (PBL) isolation and phage libraries were constructed. In brief: total RNA was extracted from PBLs, transcribed into cDNA, purified, and used as a template for immunoglobulin heavy-chain-encoding cDNA amplification. The resultant cDNA was run on an agarose gel and the cDNA encoding heavy-chain-only immunoglobulin (~ 700 bp) were excised from the gel. The purified cDNA and used as a template for a nested PCR that introduced an appropriate 5’ flanking restriction site and amplified only binding agent-encoding cDNA. The purified PCR product was digested with appropriate restriction enzymes, after which the digested products were ligated in frame with genelll into the pQ81 phagemid vector.
[0227] The ligated library was transformed into TG1 E. coli by electroporation for display on filamentous bacteriophage. Two consecutive rounds of selection were performed, followed by screening single clones for binding to the recombinant captured antigen. Those clones that scored positive for binding were sequenced and a selection of clones having a different sequence were then tested for Nectin-4 binding by ELISA. Nine different clones were identified and termed: LV1178 (SEQ ID NO: 120), LV1179 (SEQ ID NO: 132), LV1180 (SEQ ID NO: 136), LV1181 (SEQ ID NO: 98), LV1183 (SEQ ID NO: 124), LV1184 (SEQ ID NO: 91), LV1185 (SEQ ID NO: 106), LV1186 (SEQ ID NO: 113), and LV1187 (SEQ ID NO: 128).
Example 2: Binding of Nectin-4 binding agents to human, cynomolgus monkey, and mouse Nectin-4
[0228] Protein sequences of human (Uniprot number Q96NY8), cynomolgus monkey (Uniprot number A0A2K5WES1) and mouse (Uniprot number Q8R007) Nectin-4 were reverse-translated into cDNA and then codon-optimized for expression in human cells. Regulatory elements were added to each cDNA, namely an N-terminal Kozak sequence and C-terminal stop codon
(including BamH1 and Age1 restriction sites for cloning) and the cDNA was made into a synthetic gene. cDNAs were then cloned into a suitable vector and the sequences were verified. Expression of the proteins was performed by transient transfection of the resulting plasmids in CHO-K1 cells. Expression of human/cynomolgus/mouse Nectin-4 was confirmed using commercially available control antibodies (Nectin-4-AF647 [R&D systems] and Nectin-4 Antibody, anti-human, APC, REAfinity [Miltenyi]) in flow cytometry.
[0229] Cells from each transfection were seeded in 96F CellBIND plates (Corning) and cultured overnight at 37°C/5% CO2 in a humidified atmosphere and subsequently incubated with serial dilutions of each binding agent, ranging from 0.032 to 500 nM for one hour at 37°C/5% CO2. Plates were washed and cells were incubated with HRP-labeled rabbit anti-camelid VHH cocktail (GenScript) for one hour at 37°C/5% CO2. After washing, 3,3’,5,5’-tetramethylbenzidine (TMB) substrate was added, followed by 20 minute incubation at room temperature. The reaction was stopped by addition of stop buffer (1 M H2SO4) and the optical densities were measured with a multi-mode plate reader Spectramax iD5, at wavelengths 450 nm and 610 nm.
[0230] FIG. 2A-FIG. 2D show that all the binding agents bound dose-dependently to human Nectin-4 expressing CHO-K1 cells, and did not bind to non-transfected CHO-K1 cells. Based on the strength of their binding, Nectin-4 binding agents were divided in three groups:
(a) Strong binders: LV1181 (SEQ ID NO: 98), LV1184 (SEQ ID NO: 91), LV1185 (SEQ ID NO: 106), LV1186 (SEQ ID NO: 113) and LV1187 (SEQ ID NO: 128);
(b) Intermediate binders LV1178 (SEQ ID NO: 120) and LV1183 (SEQ ID NO: 124); and
(c) Weak binders LV1179 (SEQ ID NO: 132) and LV1180 (SEQ ID NO: 136).
[0231] All the Nectin-4 binding agents showed cross reactivity to CHO-K1 cells expressing cynomolgus monkey Nectin-4 (FIG. 3A-FIG. 3B). Again, the three groups of strong, intermediate, and weak binding of the Nectin-4 binding agents were observed. The Nectin-4 binding agents that had ‘strong binding’ and ‘weak binding’ also cross-reacted to murine Nectin-4. However, the Nectin-4 binding agents with ‘intermediate binding’ did not cross-react with murine Nectin-4 (FIG.
3C-FIG. 3D).
Example 3: Binding of the Nectin-4 binding agents to tumor cell lines
[0232] Based on the results in Example 2, the binders were further characterized . Using flow cytometry, binding of the selected Nectin-4 binding agents to Nectin-4 endogenously expressed on human tumor cell lines was determined. Nectin-4 expression on tumor cell lines BeWo (Sigma), A-431 (ATCC), and HT-29 (ATCC) was confirmed using commercially available Nectin-
4 monoclonal antibodies (Nectin-4-AF647 [R&D systems] and Nectin-4 Antibody, anti-human, APC, REAfinity [Miltenyi]). The U251 cell line was used as a Nectin-4-negative cell line.
[0233] Cells were incubated with a concentration range of each of the binding agents, ranging from 0.032 to 100 nM, and the binding of the Nectin-4 binding agent was detected using a rabbit anti-camelid iFluor 647-labeled antibody (Genscript). Staining was visualized using a FACS Celesta (Becton and Dickinson).
[0234] FIG. 4A-FIG. 4F show that the LV1181 and LV1184 Nectin-4 binding agents had strong binding to Nectin-4 expressing tumor cells; the LV1185, LV1186, and LV1187 Nectin-4 binding agents showed less, but still detectable binding to Nectin-4 expressing tumor cells; and the LV1178, LV1179 and LV1180 Nectin-4 binding agents showed very limited binding to Nectin-4 expressing tumor cells. EC50s for the LV1181 and LV1184 Nectin-4 binding agents to BeWo (FIG. 4A-FIG. 4B), A431 (FIG. 4C-FIG. 4D) and HT-29 (FIG. 4E-FIG. 4F) cells were determined by curve fitting using GraphPad-Prism software and are shown in Table 10; EC50s for binding of the other Nectin-4 binding agents could not be determined due to incomplete binding curves.
Example 4: Synthetic gene synthesis, production, and purification of Nectin-4xV52 multispecific binding agents
[0235] The sequences of the four Nectin-4 binding agents that showed strongest binding to tumor cells that endogenously express Nectin-4 (LV1181 , LV1184, LV1185, and LV1186) were then reformatted into multi-specific binding agents with a V52 binding agent (5C8) in the orientation: N’ Nectin-4 VHH - linker - V52 VHH C’. The linker between the two binding agent ‘heads’ was a glycine(G)-serine(S) stretch with the sequence G4S (SEQ ID NO: 254). Full amino acid IDs for these bispecific binding agents are provided below in Table 11.
Table 11 : Amino acid sequences of bispecific binding agents.
[0236] The cDNAs encoding these proteins were made by synthetic gene assembly and cloned into a proprietary expression vector. HEK293E-253 cells were transiently transfected with the expression vectors to express the encoded proteins. After 6 days, the proteins were then purified from the conditioned cell culture supernatant using HiTrap Fibro PrismA columns according to the supplier’s protocol. After elution, proteins were buffer-exchanged to PBS. The purified proteins (Nectin-4 x V52 multi-specific binding agents) were always >95% pure as determined by SDS- PAGE analysis using Coomassie staining and contained very low levels of endotoxin (<0.5 EU/mg).
Example 5: Affinity determination of the Nectin-4 binding agents and Nectin-4xV52 multispecific binding agents to human Nectin-4 using biolayer interferometry (BLI)
[0237] To determine the kinetics of binding of the Nectin-4 binding agents and multi-specific binding agents to human Nectin-4, recombinant purified human Nectin-4-Fc fusion protein (Aero Biosystems) was loaded onto anti-human IgG Fc Capture biosensors (using a concentration of 2.5 pg/mL) for an Octet Red96e (Sartorius) instrument. The sensors were then dipped in different concentrations of the various binding agents and multi-specific binding agents, which were diluted in 10x kinetic buffer (10xKB) provided by the supplier. From the obtained sensorgrams, the kinetic association- and dissociation rate constants were determined by curve fitting. The binding agents tested were LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187. The multi-specific binding agents tested were LV1181xV52, LV1184xV52, LV1185xV52, and LV1186xV52. Table 12 shows the binding affinities (KD) of the binding agents determined in 2 independent runs. Table 13 shows the kinetic parameters of binding of the Nectin-4xV52 multispecific binding agents for human Nectin-4 determined in 2 independent runs. ND means Not Determined
Table 13: Binding affinities and kinetics of Nectin-4xV52 multi-specific binding agents determined by BLI
Example 6: Competition for binding to human Nectin-4 determination
[0238] Using BLI, competition for binding to human Nectin-4 between the Nectin-4 binding agents was determined. Anti-human IgG Fc Capture sensors were loaded with human Nectin-4 Fc fusion protein as described above. The nine different Nectin-4 binding agents identified in the previous examples (LV1178, LV1179, LV1180, LV1181 , LV1183, LV1184, LV1185, LV1186, and LV1187) were used in concentrations based on the affinities as indicated above. A fixed amount of the first binding agent was allowed to bind to the Nectin-4 loaded sensor, after which the sensor was exposed to a mixture of the same amount of first binding agent and a fixed amount of the second binding agent, followed by dissociation in 10X KB.
[0239] From the obtained sensorgrams, it was concluded that all nine different VHHs competed with each other for binding to human Nectin-4. Results are shown in Table 14, where “+” shows competitive bindingand blank cells were not tested.
Example 7: Binding of Nectin-4xV52 multi-specific binding agents to tumor cell lines [0240] Binding of the Nectin-4xV52 multi-specific binding agents to Nectin-4 endogenously expressed on human tumor cell lines A-431 and HT-29 was determined by flow cytometry as described above.
[0241] FIG. 5A-FIG. 5B show that both the LV1181xV52 and the LV1184xV52 multi-specific binding agents bound to both cell lines with high affinity, whereas both the LV1185xV52 and the LV1186xV52 multi-specific binding agents bound to the tumor cell lines with lower affinity. See Table 15.
Example 8: PBMC isolation and generation of human donor-derived Vy9V52-T cell cultures [0242] Buffy coats were obtained from blood supply service Sanquin and used for isolation of peripheral blood mononuclear cells (PBMC). PBMC were isolated using Lymphoprep™ density gradient centrifugation. Vy9V52-T cells were then isolated from healthy donor-derived PBMC by magnetic-activated cell sorting (MACS) using a FITC-labeled anti-TCR V52 mouse monoclonal antibody (Mab) in combination with goat anti-mouse IgG microbeads. Purified Vy9V52-T cells were stimulated every seven days with a feeder cell mix consisting of irradiated PBMC from two (other) healthy donors and an Epstein Barr Virus transformed B cell line (JY) resuspended in Roswell Park Memorial Institute (RPMI) medium supplemented with 10 lU/mL IL-7, 10 ng/mL IL- 15 and 50 ng/ml PHA. Expanded Vy9V52-T cell cultures between 12 and 15 days after the last stimulation and were tested for purity (and only used when >90% pure) before being used for experiments.
Example 9: Binding of Nectin-4xV52 multi-specific binding agents to Vy9V52 T cells
[0243] Binding of the Nectin-4xV52 multi-specific binding agents to Vy9V52 T cells was determined by flow cytometry as described above. FIG. 6 shows that all 4 Nectin-4xV52 multispecific binding agents bound to Vy9V52 T cells with similar EC50s (See Table 15).
Example 10: Vy9V52-T cell degranulation and cytotoxicity of A-431 cells induced by Nectin- 4xV52 multi-specific binding agents
[0244] To test Vy9V52-T cell activation and tumor cytotoxicity, A-431 tumor target cells and Vy9V52 T cells were mixed in a 1 :1 ratio in culture medium with labeled anti-CD107a antibody. This mixture was seeded in 96-well culture plates (with 50,000 target/Vy9V52 T cells per well) and serial dilutions of Nectin-4xV52 multi-specific binding agents were added. Tumor cells and Vy9V52-T cells alone with, and without, the highest concentration of Nectin-4xV52 multi-specific binding agents were also prepared as controls. After incubation for 24 hours at 37°C/5% CO2, cells were resuspended, washed, and transferred to 96-well U bottom FACS plates. Remaining adherent cells were detached using trypsin/0.5% EDTA, washed and transferred to the corresponding wells of the FACS plates. The plates were washed and the cells were resuspended in FACS buffer (PBS/1 % BSA) and incubated with labeled anti-CD3 (Biolegend) and anti-Vy9 (Beckman Coulter) antibodies for 30 minutes at 4°C. Cells were then washed and incubated with labeled-7-AAD. Staining was visualized using a FACS Celesta (Becton and Dickinson).
[0245] FIG.7A-FIG. 7B show that all four Nectin-4xV52 multi-specific binding agents induced similar levels of Vy9V52 T cell degranulation as determined by CD107a expression on the T cells (FIG. 7A). Surprisingly, despite differences in binding to the tumor cells as described above (See Example 7), all four Nectin-4xV52 multi-specific binding agents induced the same level of lysis of A431 cells with similar EC50s (FIG. 7B).
Example 11 : Humanization of the anti-Nectin-4 binding agents
[0246] The amino acid sequence of the llama-derived anti-Nectin-4 binding agents (LV1181 , LV1184, LV1185 and LV1186) were aligned to the human V gene database and the closest
human germline match was found to be IGHV3-66*01. Based on sequence differences in the framework regions between the human and llama-derived sequence, for each anti-Nectin-4 VHH three humanized variants (SEQ ID NOs: 92, 93, 94, 100, 101 , 102, 107, 108, 109, 114, 115, and 116) were designed.
Example 12: Expression of Nectin-4 in Cancers
[0247] FIG. 1A shows Nectin-4 expression on freshly isolated patient tumor samples. FIG. 8A and FIG. 8B shows the Nectin-4 expression of urothelial cell carcinoma (UCC) and non-malignant bladder tissue as measured by the mean fluorescence index (MFI) (FIG. 8A) and as the percentage of Nectin-4 positive cells in urothelial cell carcinoma and non-malignant tissue (FIG. 8B). Non-malignant tissue was taken by pathologist from part of the bladder without macroscopic tumor tissue. (m)CRC = (metastatic) colorectal cancer; ccRCC = clear cell renal cell cancer; GBM = glioblastoma multiforme; AC = adenocarcinoma; SCC = squamous cell carcinoma; H&N = head & neck cancer; UCC = urothelial cell carcinoma.
Example 13: Nectin-4xV52 multi-specific binding agents induce Vy9V52T cell degranulation and tumor cell lysis in Nectin-4+ head and neck and bladder cancers.
[0248] Experiments were performed to evaluate the activity of LAVA-366 against head and neck cancers, urothelial cell carcinomas and malignant tumors that were Nectin-4-. Malignant urothelial cell carcinoma cells (UCC), head and neck cancer cells, or cancer cells from Nectin-4 negative tumors were incubated with allogeneic expanded Vy9V52-T cells at a ratio of effectontarget 1 :2, and then further incubated overnight with 10 nM of LAVA-366. LAVA-366 comprises the LV1181 Nectin-4 VHH and the 5C8 V52 VHH and the LAVA-366 sequence comprises SEQ ID NO: 281. Control conditions without LAVA-366 were also included.
[0249] As seen in Fig. 9A-FIG. 9B, there was an increase in both Vy9V52 T cell degranulation (as measured by percent increase in CD107a expression (FIG. 9B)) and tumor cell lysis (FIG. 9A) in tumor sample with allogeneic Vy9V52 T cells in the presence of LAVA-366 as opposed to the tumor samples that were only incubated with allogeneic Vy9V52 T cells. Accordingly, in Nectin-4- tissue there was no tumor cell lysis, and only minimal T cell degranulation in the presence of allogeneic Vy9V52 T cells and LAVA-366.
[0250] In urothelial cell carcinomas the presence of LAVA-366 lead to an increase in tumor cell lysis even without the presence of added expanded Vy9V52-T cells (FIG. 11).
[0251] In non-malignant Nectin-4+ urothelial cells (EpCAM+), there was no change in tumor cell lysis (FIG. 10) when the cells were incubated overnight with Vy9V52 T cells and either with or without 10 nM of LAVA-366.
Example 14: In vivo testing of the Nectin-4xV52 multi-specific binding agents
[0252] The anti-tumor effect of the multi-specific binding agents are tested in vivo. Mice are inoculated with head and neck or urothelial cell carcinoma. The mice are then split into different groups: 1) further inoculation with Vy9V52-T cells; 2) further inoculation with Vy9V52-T cells + 0.1 mg/kg the LV1181 (E1 D) x 5C8 var1 (E1 D-105F-R109A) multi-specific binding agent (LAVA- 1427, comprising SEQ ID NOs: 276 and 280); 3) further inoculation with Vy9V52-T cells + 0.5 mg/kg LAVA-1427; 4) further inoculation with Vy9V52-T cells + 1 mg/kg LAVA-1427; 5) further inoculation with Vy9V52-T cells + 2 mg/kg LAVA-1427; 6) 0.1 mg/kg LAVA-1427; 7) 0.5 mg/kg LAVA-1427; 8) 1 mg/kg LAVA-1427; 9) 2 mg/kg LAVA-1427; and 10) vehicle. Mouse survival is analyzed. After 6 weeks mice are euthanized and tumor volume and mass are measured.
Example 15: Modifications to binding agents to prevent pyroglutamate formation
[0253] Pyroglutamate formation at the first amino acid position in proteins increases heterogeneity and can reduce the stability of the proteins at 2-8°C, therefore requiring storage at -20°C as opposed to storage at 2-8°C. Therefore, a multi-specific binding agent was generated wherein aspartic acid, which cannot form pyroglutamate, was substituted for glutamic acid at the first N-terminal amino acid position. Pyroglutamination increases the hydrophobicity of a protein. Therefore, the presence of pyroglutamination was determined by reverse phase-HPLC, as this technique separates proteins based on hydrophobicity. More hydrophilic protein species elute at shorter retention times and more hydrophobic species elute at longer retention times.
[0254] Briefly, Chinese hamster ovary (CHO) cells were transfected with vectors coding either LAVA-1387 (forms pyroglutamate) or LAVA-1427 (cannot form pyroglutamate) and subsequently cultured in liquid medium for protein expression. The proteins were then purified and analyzed by reversed phase-HPLC. Protein samples were loaded onto a liquid chromatography system equipped with a reversed-phase column. Organic solvents were used for binding and eluting of proteins. Results are shown in FIG. 13. The main species of LAVA-1387 and LAVA-1427 exhibit essentially identical hydrophobicities as demonstrated by their highly similar retention times. However, a significant part of LAVA-1387 (black trace) carries the N-terminal modification pyroglutamate seen as the peak in the hydrophobic region. The N-terminal aspartate as present in LAVA-1427 (gray trace) cannot undergo such a modification since ring formation is hampered by the shorter sidechains. Consequently, no hydrophobic pyroglutamation peak is detected for LAVA-1427.
Claims
1 . A single domain antibody that binds to Nectin-4 comprising: a) a complementarity determining region (CDR)1 comprising an amino acid sequence selected from SEQ ID NOs: 88, 95, 103, 110, 117, 121 , 125, 129, and 133; b) a CDR2 comprising an amino acid sequence selected from SEQ ID NOs: 89, 96, 104, 111 , 118, 122, 126, 130, and 134; and c) a CDR3 comprising an amino acid sequence selected from 90, 97, 105, 112, 119, 123, 127, 131 , and 135.
2. The single domain antibody of claim 1 , wherein the CDR1 , CDR2, and CDR3 sequences are selected from a combination disclosed in Table 1A.
3. The single domain antibody of any one of claims 1-2, comprising an amino acid sequence that is at least 90%, or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
4. The single domain antibody of any one of claims 1-3, comprising SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
5. The single domain antibody of any one of claims 1 -4, consisting of SEQ ID NOs: 91 , 92, 93, 94, 98, 99, 100, 101 , 102, 106, 107, 108, 109, 113, 114, 115, 116, 120, 124, 128, 132, and 136.
6. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 88, the CDR2 comprises SEQ ID NO: 89, and the CDR3 comprises SEQ ID NO: 90.
7. The single domain antibody of claim 6, comprising an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 91 , 92, 93, and 94.
8. The single domain antibody of claim 6 or 7, comprising or consisting of the amino acid sequence of any one of SEQ ID NOs: 91 , 92, 93, and 94.
9. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 95, the CDR2 comprises SEQ ID NO: 96, and the CDR3 comprises SEQ ID NO: 97.
10. The single domain antibody of claim 9, comprising an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 98, 99, 100, 101 , and 102.
11 . The single domain antibody of claim 9 or 10, comprising or consisting of the amino acid sequence of any one of SEQ ID NOs: 98, 99, 100, 101 , and 102.
12. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 103, the CDR2 comprises SEQ ID NO: 104, and the CDR3 comprises SEQ ID NO: 105.
13. The single domain antibody of claim 12, comprising an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 106, 107, 108, and 109.
14. The single domain antibody of claim 12 or 13, comprising or consisting of the amino acid sequence of any one of SEQ I D NOs: 106, 107, 108, and 109.
15. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 110, the CDR2 comprises SEQ ID NO: 111 , and the CDR3 comprises SEQ ID NO: 112.
16. The single domain antibody of claim 15, comprising an amino acid sequence that is at least 90% or at least 95% identical to any one of SEQ ID NOs: 113, 114, 115, and 116.
17. The single domain antibody of claim 15 or 16, comprising or consisting of the amino acid sequence of any one of SEQ ID NOs: 113, 114, 115, and 116.
18. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 117, the CDR2 comprises SEQ ID NO: 118, and the CDR3 comprises SEQ ID NO: 119.
19. The single domain antibody of claim 18, comprising an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 120.
20. The single domain antibody of claim 18 or 19, comprising or consisting of the amino acid sequence of SEQ ID NO: 120.
21 . The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 121 , the CDR2 comprises SEQ ID NO: 122, and the CDR3 comprises SEQ ID NO: 123.
22. The single domain antibody of claim 21 , comprising an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 124.
23. The single domain antibody of claim 21 or 22, comprising or consisting of the amino acid sequence of SEQ ID NO: 124.
24. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 125, the CDR2 comprises SEQ ID NO: 126, and the CDR3 comprises SEQ ID NO: 127.
25. The single domain antibody of claim 24, comprising an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 128.
26. The single domain antibody of claim 24 or 25, comprising or consisting of the amino acid sequence of SEQ ID NO: 128.
27. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 129, the CDR2 comprises SEQ ID NO: 130, and the CDR3 comprises SEQ ID NO: 131.
28. The single domain antibody of claim 27, comprising an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 132.
29. The single domain antibody of claim 27 or 28, comprising or consisting of the amino acid sequence of SEQ ID NO: 132.
30. The single domain antibody of claim 1 or claim 2, wherein the CDR1 comprises SEQ ID NO: 133, the CDR2 comprises SEQ ID NO: 134, and the CDR3 comprises SEQ ID NO: 135.
31. The single domain antibody of claim 30, comprising an amino acid sequence that is at least 90% or at least 95% identical to SEQ ID NO: 136.
32. The single domain antibody of claim 30 or 31 , comprising or consisting of the amino acid sequence of SEQ I D NO: 136.
33. The single domain antibody of any one of claims 1-2, wherein the CDR1 comprises SEQ ID NO: 95, CDR3 comprises SEQ ID NO: 96, and CDR3 comprises SEQ ID NO: 97.
34. The single domain antibody of any one of claims 1-2 or 6, comprising an amino acid sequence that is at least 90%, or at least 95% identical to SEQ ID NO: 99.
35. The single domain antibody of any one of claims 1-2 or 33-34, comprising SEQ ID NO: 99.
36. The single domain antibody of any one of claims 1-2 or 33-35, consisting of SEQ ID NO: 99.
37. A polynucleotide encoding the single domain antibody of any one of claims 1-36.
38. A vector comprising the polynucleotide of claim 37.
39. A host cell comprising the polynucleotide of claim 37 or the vector of claim 38.
40. A method of producing the single domain antibody of any one of claims 1 -36, comprising: a. introducing the vector of claim 38 into a host cell under conditions permitting expression of the polynucleotide encoding the single domain antibody; and b. isolating the single domain antibody from the culture supernatant.
41. A composition comprising the single domain antibody of any one of claims 1-36 and a pharmaceutically acceptable carrier.
42. A binding agent comprising the single domain antibody of any one of claims 1-36.
43. A multi-specific binding agent comprising: a. a first antigen-binding domain that specifically binds to human Nectin-4; and comprises the single domain antibody of any one of claims 1-36; and b. a second antigen-binding domain that specifically binds to an antigen expressed on an immune cell.
44. The multi-specific binding agent of claim 43, wherein the second antigen-binding domain specifically binds to a target antigen selected from CD3, CD2, an a8 T cell receptor, a y5 T cell receptor (e.g., V52 TCR or V51 TCR).
45. The multi-specific binding agent of claim 43 or claim 44, wherein the first and second antigen-binding domains are present in the same polypeptide chain.
46. The multi-specific binding agent of any one of claims 43-45, wherein the first antigenbinding domain and second antigen-binding domain are covalently linked via a peptide linker.
47. The multi-specific binding agent of claim 43 or claim 44, wherein the first and second antigen-binding domains are present on different polypeptide chains.
48. The multi-specific binding agent of any one of claims 43-44 or 47, further comprising an Fc domain comprising a first and a second Fc domain monomer.
49. The multi-specific binding agent of claim 48, comprising: a. a first polypeptide comprising the first antigen-binding domain that binds to a human Nectin-4 protein and the first Fc domain monomer; and b. a second polypeptide comprising the second antigen-binding domain that binds to a human V52 T cell receptor and the second Fc domain monomer.
50. The multi-specific binding agent of claim 49, wherein the human V52 T cell receptor is a Vy9V52 T cell receptor.
51 . The multi-specific binding agent of any one of claims 49-50, wherein the antigen-binding domain that binds to the Vy9V52 T cell receptor comprises SEQ ID NO: 22.
52. The multi-specific binding agent of any one of claims 49-51 , wherein the antigen-binding domain that binds to the Vy9V52 T cell receptor consists of SEQ ID NO: 22.
53. The multi-specific binding agent of any one of claims 50-52, wherein the multi-specific binding agent induces proliferation of Vy9V52 T cells.
54. The multi-specific binding agent of any one of claims 49-53, wherein the first and second Fc domain monomers comprise a mutation at position 234 and/or 235 according to the EU numbering system.
55. The multi-specific binding agent of claim 54, wherein the first and second Fc domain
monomers comprise an L234F and an L235E substitution.
56. The multi-specific binding agent of any one of claims 49-55, wherein the first Fc domain monomer comprises a T366W substitution, and the second Fc domain monomer comprises T366S, L368A and Y407V substitutions, or vice versa, according to the EU numbering system; and/or wherein the cysteine residues at position 220 according to the EU numbering system in the first and second Fc domain monomers have been deleted or substituted.
57. A multi-specific binding agent comprising a) a first antigen-binding domain that binds to human Nectin-4, where the first antigenbinding domain comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97; and b) a second antigen-binding domain that binds to V52, where the second antigen-binding domain comprises a CDR1 comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20.
58. The multi-specific binding agent of claim 57, wherein the first antigen-binding domain comprises SEQ ID NO: 99 and the second antigen-binding domain comprises SEQ ID NO: 22.
59. The multi-specific binding agent of any one of claims 57 or 58, wherein the first and second antigen-binding domains are comprised in the same polypeptide chain.
60. A multi-specific binding agent comprising a) a first polypeptide comprising (i) a first antigen-binding domain that binds to a human Nectin-4 protein and comprises a complementarity determining region (CDR)1 comprising SEQ ID NO: 95, a CDR2 comprising SEQ ID NO: 96, and a CDR3 comprising SEQ ID NO: 97 and (ii) a first Fc domain monomer; b) a second polypeptide comprising (i) a second antigen-binding domain that binds to a human V52 T cell receptor and comprises a CDR1 comprising SEQ ID NO: 18, a CDR2 comprising SEQ ID NO: 19, and a CDR3 comprising SEQ ID NO: 20 and (ii) a second Fc domain monomer.
61. The multi-specific binding agent of claim 60, wherein the first Fc domain monomer comprises SEQ ID NO: 231 and the second Fc domain monomer comprises SEQ ID NO: 230.
62. The multi-specific binding agent of claim 60, wherein the first Fc domain monomer comprises SEQ ID NO: 230 and the second Fc domain monomer comprises SEQ ID NO: 231 .
63. The multi-specific binding agent of any one of claims 60-62, wherein the first antigenbinding domain comprises SEQ ID NO: 276.
64. The multi-specific binding agent of any one of claims 60-63, wherein the second antigenbinding domain comprises SEQ ID NO: 280.
65. The multi-specific binding agent of any one of claims 60-64, wherein a) the first polypeptide comprises SEQ ID NO: 276; and b) the second polypeptide comprises SEQ ID NO: 280.
66. A polynucleotide encoding the multi-specific binding agent of any one of claims 43-65.
67. An expression vector comprising the polynucleotide of claim 66.
68. A host cell comprising the polynucleotide of claim 66 or the expression vector of claim 67.
69. The host cell of claim 68, wherein the cell is a OHO cell.
70. A method of producing the multi-specific binding agent of any one of claims 43-65, comprising culturing the host cell of claim 68 or 69 under conditions sufficient to express the multispecific binding agent from the polynucleotide or expression vector therein and purifying the expressed multi-specific binding agent from the culture supernatant.
71 . A pharmaceutical composition comprising the single domain antibody of any one of claims 1-36, the binding agent of claim 42, or the multi-specific binding agent of any one of claims 43- 65, and a pharmaceutically-acceptable excipient.
72. A method of treating a cancer in a subject in need thereof, comprising administering to the subject the single domain antibody of any one of claims 1-36, the binding agent of claim 42, or the multi-specific binding agent of any one of claims 43-65, or the pharmaceutical composition of claim 71.
73. The method of claim 72, wherein the subject is human.
74. The method of any one of claims 72-73, wherein the subject is suffering from a bladder cancer, urothelial cell cancer, head and neck cancer, choriocarcinoma, epidermoid carcinoma, or colorectal adenocarcinoma.
75. A method of expanding Vy9V52+ T cells comprising contacting the Vy9V52+ T cells with single domain antibody of any one of claims 1-36, the binding agent of claim 42, or the multispecific binding agent of any one of claims 43-65, or the pharmaceutical composition of claim 71.
76. A method increasing the stability of a protein, wherein the protein is modified at the first position to a non-pyroglutamate forming amino acid.
77. The method of claim 76, wherein the non-pyroglutamate forming amino acid is aspartic acid.
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