IL292871A

Activatable cytokine polypeptides and methods of use thereof

Abstract

This record has no abstract on file.

IL292871A, drawing sheet 1
Sheet 1 of 223

Term

No projected expiry on record.

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68 claims: 37 independent, 31 dependent

  1. 1
    A pharmaceutical composition comprising:(i) a fusion polypeptide comprising a cytokine polypeptide [A], a blocking moiety [D], optionally a half-life extension moiety [H] and a protease-cleavable polypeptide linker;and (ii) a second therapeutic agent;wherein the cytokine polypeptide and the blocking moiety and the optional half-life extension element when present are operably linked by the protease-cleavable polypeptide linker and the fusion polypeptide has attenuated cytokine receptor activating activity, wherein the cytokine-receptor activating activity of the fusion polypeptide is at least about 10X less than the cytokine receptor activating activity of the polypeptide that contains the cytokine polypeptide that is produced by cleavage of the protease cleavable linker.
  2. 4
    The pharmaceutical composition of any one of claims 1-3 wherein the fusion polypeptide has the formula:[A]-[L1]-[H]-[L2]-[D] [D]-[L2]-[H]-[L1]-[A] [A]-[L1]-[D]-[L2]-[H] [H]-[L2]-[D]-[L1]-[A] [H]-[L1]-[A]-[L2’]-[D] [D]-[L1]-[A]-[L2’]-[H] wherein [A] is a cytokine polypeptide, [D] is a blocking moiety, [H] is a half-life extension moiety, [LI] is a protease-cleavable polypeptide linker, [L2] is an polypeptide linker that is optionally protease-cleavable, and [L2’] is a protease-cleavable polypeptide linker. 236
  3. 8
    The pharmaceutical composition of any one of claims 4-6 wherein the second fusion polypeptide has the formula:[A]-[L1]-[H]-[L2]-[D] [D]-[L2]-[H]-[L1]-[A] [A]-[L1]-[D]-[L2]-[H] [H]-[L2]-[D]-[L1]-[A] [H]-[L1]-[A]-[L2’]-[D] [D]-[L1]-[A]-[L2’]-[H] wherein [A] is a cytokine polypeptide, [D] is a blocking moiety, [H] is a half-life extension moiety, [LI] is a protease-cleavable polypeptide linker, [L2] is an polypeptide linker that is optionally protease-cleavable, and [L2’] is a protease-cleavable polypeptide linker.
  4. 15
    The pharmaceutical composition of any one of claims 1-14, wherein the second therapeutic agent is a chemotherapeutic agent, radiation therapy, an immunotherapeutic agent, a T cell agonist cytokine, a CAR-T, antibody-drug conjugate, or an oncolytic virus therapy.
  5. 19
    The pharmaceutical composition of anyone of the preceding claims, wherein the fusion polypeptide comprises an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366,372-381, 383-385, 388-420, 579-608, 636-646, 368-371, 434-440,453-519, 523-538,421-430, and 539-578.
  6. 24
    The pharmaceutical composition of any one of claims 21-23, wherein the functional binding site is an Fab fragment of an antibody.
  7. 25
    The pharmaceutical composition of any one of claims 21-23, wherein the first fusion polypeptide dimerizes.
  8. 26
    A pharmaceutical composition comprising a (i) a first fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372-381, 383-385, 388-420, 579-608,636-646, 368-371,434-440,453-519, 523-538, 421-430, and 539-578, and (ii) a second fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372- 239 381, 383-385, 388-420, 579-608, 636-646, 368-371,434-440,453-519, 523-538,421-430, and 539578;wherein the first fusion polypeptide and the second fusion polypeptide are not the same.
  9. 27
    A pharmaceutical composition comprising a (i) a first fusion polypeptide comprising a first polypeptide chain comprising an amino acid sequence selected from SEQ ID NOs. 362, 363, 325, 286, 579, 581, or 582 and a second polypeptide sequence comprising the amino acid sequence of SEQ ID NOs:263,264, or 333, and (ii) a second therapeutic agent, wherein the second therapeutic agent is a second fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372-381, 383-385, 388-420, 579-608, 636646, 368-371,434-440,453-519, 523-538,421-430, and 539-578;wherein the first fusion polypeptide and the second fusion polypeptide are not the same.
  10. 28
    A fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372-381,383-385, 388-420, 579-608, and 636-646 or an amino acid sequence that has at least about 80% identity to SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372-381,383-385, 388-420, 579-608, and 636-646.
  11. 30
    A polypeptide comprising a first polypeptide that is covalently or non-covalently bonded to a second polypeptide, wherein the first polypeptide comprises an amino acid sequence selected from SEQ ID NOs. 362, 363, 325,286, 579, 581, or 582 or an amino acid sequence that has at least 80% identity to the SEQ ID NOs. 362, 363,325,286, 579, 581, or 582 and the second polypeptide sequence comprises an amino acid sequence of SEQ ID NOs:263,264, or 333 or an amino acid sequence that has at least 80% identity to SEQ ID NOs: 263,264, or 333.
  12. 31
    A fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 368-371,434-440,453-519, and 523-538, or an amino acid sequence that has at least about 80% identity to SEQ ID NOs. 368-371,434-440,453-519, and 523-538.
  13. 32
    A fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 421-430, and 539-578, or an amino acid sequence that has at least 80% identity to SEQ ID NOs. 421-430, and 539-578. 240
  14. 33
    The fusion polypeptide of claim 33, wherein the fusion polypeptide comprises an amino acid sequence selected from SEQ ID NOs.:424,428, 541, 556, 560, 568, or 573.
  15. 35
    A nucleic acid encoding the fusion polypeptide of any one of claims 1-27 or 28-33.
  16. 39
    A combination comprising:(i) a therapeutically effective amount of a fusion polypeptide comprising a cytokine polypeptide [A], a blocking moiety [D], optionally a half-life extension moiety [H] and a protease-cleavable polypeptide linker ;and (ii) a therapeutically effective amount of a second therapeutic agent for use in treating a cancer in a subject in need thereof;wherein the cytokine polypeptide and the cytokine blocking moiety and the optional half-life extension element when present are operably linked by the protease-cleavable polypeptide linker and the fusion polypeptide has attenuated cytokine receptor activating activity, wherein the cytokinereceptor activating activity of the fusion polypeptide is at least about 10X less than the cytokine receptor activating activity of the polypeptide that contains the cytokine polypeptide that is produced by cleavage of the protease cleavable linker.
  17. 40
    A method of treating a cancer in a subject comprising administering to the subject in need thereof (i) a therapeutically effective amount of a fusion polypeptide comprising a cytokine polypeptide [A], a blocking moiety [D], optionally a half-life extension moiety [H] and a proteasecleavable polypeptide linker;and (ii) a therapeutically effective amount of a second therapeutic agent;wherein the cytokine polypeptide and the cytokine blocking moiety and the optional half-life extension element when present are operably linked by the protease-cleavable polypeptide linker and the fusion polypeptide has attenuated cytokine receptor activating activity, wherein the cytokinereceptor activating activity of the fusion polypeptide is at least about 10X less than the cytokine 241 receptor activating activity of the polypeptide that contains the cytokine polypeptide that is produced by cleavage of the protease cleavable linker.
  18. 43
    The use or method of any one of claims 39-42, wherein the fusion polypeptide has the formula:[A]-[L1]-[H]-[L2]-[D] [D]-[L2]-[H]-[L1]-[A] [A]-[L1]-[D]-[L2]-[H] [H]-[L2]-[D]-[L1]-[A] [H]-[L1]-[A]-[L2’]-[D] [D]-[L1]-[A]-[L2’]-[H] wherein A is a cytokine polypeptide, D is a blocking moiety, H is a half-life extension moiety, LI is a protease-cleavable polypeptide linker, L2 is an polypeptide linker that is optionally proteasecleavable, and L2’ is a protease-cleavable polypeptide linker.
  19. 44
    The use or method of any one of claims 39-43, wherein the second therapeutic agent is a second fusion polypeptide comprising a cytokine polypeptide [A], a blocking moiety [D], optionally a half-life extension moiety [H] and a protease-cleavable polypeptide linker ;wherein the cytokine polypeptide and the cytokine blocking moiety and the optional half-life extension element when present are operably linked by the protease-cleavable polypeptide linker and the fusion polypeptide has attenuated cytokine receptor activating activity, wherein the cytokinereceptor activating activity of the fusion polypeptide is at least about 10X less than the cytokine receptor activating activity of the polypeptide that contains the cytokine polypeptide that is produced by cleavage of the protease cleavable linker.
  20. 47
    The use or method of any one of claims 39-46, wherein the second fusion polypeptide has the formula:[A]-[L1]-[H]-[L2]-[D] [D]-[L2]-[H]-[L1]-[A] [A]-[L1]-[D]-[L2]-[H] [H]-[L2]-[D]-[L1]-[A] [H]-[L1]-[A]-[L2’]-[D] [D]-[L1]-[A]-[L2’]-[H] wherein A is a cytokine polypeptide, D is a blocking moiety, H is a half-life extension moiety, LI is a protease-cleavable polypeptide linker, L2 is an polypeptide linker that is optionally proteasecleavable, and L2’ is a protease-cleavable polypeptide linker.
  21. 48
    The use or method of any one of claims 39-47, wherein the first fusion polypeptide comprises a IL-2 polypeptide and the second fusion polypeptide comprises a different IL-2 polypeptide, a IL-12 polypeptide, an interferon alpha polypeptide, an interferon beta polypeptide, or a mutein, or an active fragment of any of the foregoing.
  22. 49
    The use or method of any one of claims 39-47, wherein the first fusion polypeptide comprises a IL-12 polypeptide and the second fusion polypeptide comprises a different IL-12 polypeptide, a IL-2 polypeptide, an IFNalpha polypeptide, an interferon beta polypeptide, or a mutein, or an active fragment of any of the foregoing.
  23. 50
    The use or method of any one of claims 39-50, wherein the first fusion polypeptide comprises a interferon alpha polypeptide or an IFN beta polypeptide and the second fusion polypeptide comprises a different interferon alpha polypeptide, a different interferon beta polypeptide, a IL-2 polypeptide, a IL-12 polypeptide, or a mutein, or an active fragment of any of the foregoing.
  24. 52
    The use or method of any one of claims 39-51, wherein the second therapeutic agent is an agent for treating cancer.
  25. 53
    The use or method of any one of claims 39-52, wherein the second therapeutic agent is an immunomodulator.
  26. 54
    The use or method of claim any one of claims 39-53, wherein the second therapeutic agent is a chemotherapeutic agent, radiation therapy, an immunotherapeutic agent, a T cell agonist cytokine, a CAR-T, antibody-drug conjugate, or an oncolytic virus therapy.
  27. 55
    The use or method of any one of claims 39-54, wherein each protease-cleavable polypeptide linker independently comprises a sequence that is capable of being cleaved by a protease selected from the group consisting of a kallikrein, thrombin, chymase, carboxypeptidase A, cathepsin G, cathepsin L, an elastase, PR-3, granzyme M, a calpain, a matrix metalloproteinase (MMP), an ADAM, a FAP, a cathepsin L, a plasminogen activator, a cathepsin, a caspase, a tryptase, and a tumor cell surface protease.
  28. 56
    The use or method of any one of claims 39-55, wherein the half-life extension element comprises a serum albumin binding domain, a serum albumin, transferrin, or immunoglobulin Fc, or fragment thereof.
  29. 57
    The use or method of any one of claims 39-56, wherein the cytokine blocking moiety comprises an antibody or an antigen-binding fragment of an antibody that binds the cytokine polypeptide.
  30. 58
    The use or method of any one of claims 39-56, wherein the first fusion polypeptide comprises the amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325353, 355-365, 366, 372-381, 383-385, 388-420, 579-608, 636-646, 368-371,434-440,453-519, 523538,421-430, and 539-578.
  31. 59
    The use or method of any one of claims 39-57, wherein the second therapeutic agent comprises the amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302317, 325-353, 355-365, 366, 372-381, 383-385,388-420, 579-608, 636-646, 368-371,434-440,453519, 523-538,421-430, and 539-578. 244
  32. 60
    The use or method of any one of claims 39-57, wherein the first fusion polypeptide comprises the amino acid selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355365, 366, 372-381, 383-385, 388-420, 579-608,636-646, 368-371,434-440,453-519, 523-538,421430, and 539-578 and the second therapeutic agent comprises the amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317, 325-353, 355-365, 366, 372-381, 383-385, 388-420, 636-646, 579-608, 368-371,434-440,453-519, 523-538,421-430, and 539-578, wherein the fusion polypeptide and the second therapeutic agent are different.
  33. 61
    The use or method of any one of claims 39-60, wherein the first fusion polypeptide is bonded covalently or noncovalently to a second polypeptide chain.
  34. 64
    The use or method of any one of claims 61-63, wherein the functional binding site is an Fab fragment of an antibody.
  35. 65
    The use or method of any one of claims 61-64, wherein the first fusion polypeptide dimerizes.
  36. 66
    The method or use of any one of claims 39-65, wherein the first fusion polypeptide comprises a first polypeptide and second polypeptide, wherein the first polypeptide comprises an amino acid sequence selected from SEQ ID NOs. 362, 363, 325,286, 579, 581, or 582 and the second polypeptide sequence comprises an amino acid sequence of SEQ ID NOs:263,264, or 333
  37. 67
    The method or use of any one of claims 39-65, comprising a (i) a first fusion polypeptide comprising a first polypeptide chain comprising an amino acid sequence selected from SEQ ID NOs. 362, 363, 325,286, 579, 581, or 582 and a second polypeptide sequence comprising the amino acid sequence of SEQ ID NOs:263,264, or 333, and (ii) a second therapeutic agent, wherein the second therapeutic agent is a second fusion polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs. 257-300, 302-317,325-353, 355-365, 366, 372-381, 383-385, 388420, 579-608, 636-646, 368-371,434-440,453-519, 523-538,421-430, and 539-578;wherein the first fusion polypeptide and the second fusion polypeptide are not the same. 245
  38. 68
    The use or method of any one of claims 39-67, wherein the cancer is melanoma, renal cancer, breast cancer, ovarian cancer, prostate cancer, kidney cancer, pancreatic cancer, brain cancer, bladder cancer, or lung cancer.
Independent claims38