POLYOMAVIRUS NEUTRALIZING ANTIBODIES

• US 20190002533A1
• Filed: 09/08/2016
• Published: 01/03/2019
• Est. Priority Date: 09/16/2015
• Status: Active Grant

• Current Assignee: Novartis Ag
• Original Assignee: Adam Lloyd Feire, Fangmin Xu, Lichun WANG, Mark Knapp, Qilong Wu, Steven Kovacs, Yongqiang Wang
• Inventors: ABEND, Johanna, DRAGIC, Zorica, FEIRE, Adam Lloyd, KNAPP, Mark, KOVACS, Steven, TRAGGIAI, Elisabetta, WANG, Lichun, WANG, Yongqiang, WU, Danqing, WU, Qilong, XU, Fangmin
• Granted Patent: US 10,450,366 B2
• Time in Patent Office: Days
• CPC Class Codes: A61K 39/42 viral
• CPC Class Codes: A61K 45/06 Mixtures of active ingredients without chemical characterisation, e.g. antiphlogistics and cardiaca
• CPC Class Codes: A61K 9/19 lyophilised , i.e. freeze-dried, solutions or dispersions lyophilised products with subsequent particle size reduction A61K9/14; granules or pellets made by lyphilisation A61K9/1682; solid oral dosage forms made by lyophilisation A61K9/2095; lyophilisation additives A61K47/00
• CPC Class Codes: A61P 1/00 Drugs for disorders of the alimentary tract or the digestive system
• CPC Class Codes: A61P 13/02 of urine or of the urinary tract, e.g. urine acidifiers
• CPC Class Codes: A61P 13/10 of the bladder
• CPC Class Codes: A61P 13/12 of the kidneys
• CPC Class Codes: A61P 25/00 Drugs for disorders of the nervous system
• CPC Class Codes: A61P 29/00 Non-central analgesic, antipyretic or antiinflammatory agents, e.g. antirheumatic agents; Non-steroidal antiinflammatory drugs [NSAID]
• CPC Class Codes: A61P 31/20 for DNA viruses
• CPC Class Codes: A61P 37/02 Immunomodulators
• CPC Class Codes: A61P 37/06 Immunosuppressants, e.g. drugs for graft rejection
• CPC Class Codes: A61P 43/00 Drugs for specific purposes, not provided for in groups A61P1/00-A61P41/00
• CPC Class Codes: A61P 9/00 Drugs for disorders of the cardiovascular system
• CPC Class Codes: A61P 9/10 for treating ischaemic or atherosclerotic diseases, e.g. antianginal drugs, coronary vasodilators, drugs for myocardial infarction, retinopathy, cerebrovascula insufficiency, renal arteriosclerosis
• CPC Class Codes: C07K 16/084 Papovaviridae, e.g. papillomavirus, polyomavirus, SV40, BK virus, JC virus
• CPC Class Codes: C07K 2317/20 characterized by taxonomic origin
• CPC Class Codes: C07K 2317/21 from primates, e.g. man
• CPC Class Codes: C07K 2317/24 containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered
• CPC Class Codes: C07K 2317/33 Crossreactivity, e.g. for species or epitope, or lack of said crossreactivity
• CPC Class Codes: C07K 2317/34 : Identification of a linear epitope shorter than 20 amino acid residues or of a conformational epitope defined by amino acid residues
• CPC Class Codes: C07K 2317/41 : Glycosylation, sialylation, or fucosylation
• CPC Class Codes: C07K 2317/56 : variable (Fv) region, i.e. VH and/or VL
• CPC Class Codes: C07K 2317/565 : Complementarity determining region [CDR]
• CPC Class Codes: C07K 2317/622 : Single chain antibody (scFv)
• CPC Class Codes: C07K 2317/76 : Antagonist effect on antigen, e.g. neutralization or inhibition of binding
• CPC Class Codes: C07K 2317/92 : Affinity (KD), association rate (Ka), dissociation rate (Kd) or EC50 value
• CPC Class Codes: Y02A 50/30 : Against vector-borne diseases, e.g. mosquito-borne, fly-borne, tick-borne or waterborne diseases whose impact is exacerbated by climate change

Abstract

The present disclosure is directed to anti-VP1 antibodies, antibody fragments, and their uses for the reducing the likelihood or treatment of polyoma virus infection.

Claims

1-6. -6. (canceled)

7. An antibody, wherein said antibody or antigen binding fragment specifically binds to a VP1 epitope.

8. The antibody of claim 7, wherein said antibody or antigen binding fragment thereof comprises:

(i) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

126, (b) a HCDR2 of SEQ ID NO;

127, (c) a HCDR3 of SEQ ID NO;

128; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

136, (e) a LCDR2 of SEQ ID NO;

137, and (f) a LCDR3 of SEQ ID NO;

138;

(ii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

146, (b) a HCDR2 of SEQ ID NO;

147, (c) a HCDR3 of SEQ ID NO;

148; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

156, (e) a LCDR2 of SEQ ID NO;

157, and (f) a LCDR3 of SEQ ID NO;

158;

(iii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

166, (b) a HCDR2 of SEQ ID NO;

167, (c) a HCDR3 of SEQ ID NO;

168; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

176, (e) a LCDR2 of SEQ ID NO;

177, and (f) a LCDR3 of SEQ ID NO;

178;

(iv) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

226, (b) a HCDR2 of SEQ ID NO;

227, (c) a HCDR3 of SEQ ID NO;

228; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

236, (e) a LCDR2 of SEQ ID NO;

237, and (f) a LCDR3 of SEQ ID NO;

238;

(v) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

246, (b) a HCDR2 of SEQ ID NO;

247, (c) a HCDR3 of SEQ ID NO;

248; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

256, (e) a LCDR2 of SEQ ID NO;

257, and (f) a LCDR3 of SEQ ID NO;

258;

(vi) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

266, (b) a HCDR2 of SEQ ID NO;

267, (c) a HCDR3 of SEQ ID NO;

268; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

276, (e) a LCDR2 of SEQ ID NO;

277, and (f) a LCDR3 of SEQ ID NO;

278;

(vii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

286, (b) a HCDR2 of SEQ ID NO;

287, (c) a HCDR3 of SEQ ID NO;

288; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

296, (e) a LCDR2 of SEQ ID NO;

297, and (f) a LCDR3 of SEQ ID NO;

298;

(viii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

306, (b) a HCDR2 of SEQ ID NO;

307, (c) a HCDR3 of SEQ ID NO;

308; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

314, (e) a LCDR2 of SEQ ID NO;

315, and (f) a LCDR3 of SEQ ID NO;

316;

(ix) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

322, (b) a HCDR2 of SEQ ID NO;

323, (c) a HCDR3 of SEQ ID NO;

324; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

332, (e) a LCDR2 of SEQ ID NO;

333, and (f) a LCDR3 of SEQ ID NO;

334;

(x) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

342, (b) a HCDR2 of SEQ ID NO;

343, (c) a HCDR3 of SEQ ID NO;

344; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

349, (e) a LCDR2 of SEQ ID NO;

350, and (f) a LCDR3 of SEQ ID NO;

351;

(xi) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

356, (b) a HCDR2 of SEQ ID NO;

357, (c) a HCDR3 of SEQ ID NO;

358; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

363, (e) a LCDR2 of SEQ ID NO;

364, and (f) a LCDR3 of SEQ ID NO;

365;

(xii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

370, (b) a HCDR2 of SEQ ID NO;

371, (c) a HCDR3 of SEQ ID NO;

372; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

377, (e) a LCDR2 of SEQ ID NO;

378, and (f) a LCDR3 of SEQ ID NO;

379;

(xiii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

384, (b) a HCDR2 of SEQ ID NO;

385, (c) a HCDR3 of SEQ ID NO;

386; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

391, (e) a LCDR2 of SEQ ID NO;

392, and (f) a LCDR3 of SEQ ID NO;

393;

(xiv) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

398, (b) a HCDR2 of SEQ ID NO;

399, (c) a HCDR3 of SEQ ID NO;

400; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

405, (e) a LCDR2 of SEQ ID NO;

406, and (f) a LCDR3 of SEQ ID NO;

407;

(xv) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

412, (b) a HCDR2 of SEQ ID NO;

413, (c) a HCDR3 of SEQ ID NO;

414; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

419, (e) a LCDR2 of SEQ ID NO;

420, and (f) a LCDR3 of SEQ ID NO;

421;

(xvi) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

426, (b) a HCDR2 of SEQ ID NO;

427, (c) a HCDR3 of SEQ ID NO;

428; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

433, (e) a LCDR2 of SEQ ID NO;

434, and (f) a LCDR3 of SEQ ID NO;

435;

(xvii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

440, (b) a HCDR2 of SEQ ID NO;

441, (c) a HCDR3 of SEQ ID NO;

442; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

447, (e) a LCDR2 of SEQ ID NO;

448, and (f) a LCDR3 of SEQ ID NO;

449;

(xviii) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

454, (b) a HCDR2 of SEQ ID NO;

455, (c) a HCDR3 of SEQ ID NO;

456; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

461, (e) a LCDR2 of SEQ ID NO;

462, and (f) a LCDR3 of SEQ ID NO;

463;

(xix) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

468, (b) a HCDR2 of SEQ ID NO;

469, (c) a HCDR3 of SEQ ID NO;

470; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

475, (e) a LCDR2 of SEQ ID NO;

476, and (f) a LCDR3 of SEQ ID NO;

477;

(xx) a heavy chain variable region that comprises;

(a) a HCDR1 of SEQ ID NO;

482, (b) a HCDR2 of SEQ ID NO;

483, (c) a HCDR3 of SEQ ID NO;

484; and

a light chain variable region that comprises;

(d) a LCDR1 of SEQ ID NO;

489, (e) a LCDR2 of SEQ ID NO;

490, and (f) a LCDR3 of SEQ ID NO;

491.

10. The antibody of claim 8 wherein one or two amino acids within a CDR have been modified, deleted or substituted.

11. The antibody of claim 8, wherein the antibody contains the modifications in Table 3.

12. The antibody of claim 8 that retains at least 90, 91, 92, 93, 94, 95, 96, 97, 98 or 99% identity over either the variable heavy chain region or the variable light chain region.

13. The antibody of claim 8 wherein the antibody is a monoclonal antibody, a chimeric antibody, a humanized antibody, a human engineered antibody, a human antibody, a single chain antibody (scFv) or an antibody fragment.

14. The antibody of claim 7 wherein said antibody or antigen binding fragment thereof comprises:

(i) a heavy chain variable region (vH) that comprises SEQ ID NO;

132, and a light chain variable region (vL) that comprises SEQ ID NO;

142;

(ii) a heavy chain variable region (vH) that comprises SEQ ID NO;

152, and a light chain variable region (vL) that comprises SEQ ID NO;

162;

(iii) a heavy chain variable region (vH) that comprises SEQ ID NO;

172, and a light chain variable region (vL) that comprises SEQ ID NO;

182;

(iv) a heavy chain variable region (vH) that comprises SEQ ID NO;

232, and a light chain variable region (vL) that comprises SEQ ID NO;

242;

(v) a heavy chain variable region (vH) that comprises SEQ ID NO;

252, and a light chain variable region (vL) that comprises SEQ ID NO;

262;

(vi) a heavy chain variable region (vH) that comprises SEQ ID NO;

272, and a light chain variable region (vL) that comprises SEQ ID NO;

282;

(vii) a heavy chain variable region (vH) that comprises SEQ ID NO;

292, and a light chain variable region (vL) that comprises SEQ ID NO;

302;

(viii) a heavy chain variable region (vH) that comprises SEQ ID NO;

312, and a light chain variable region (vL) that comprises SEQ ID NO;

320;

(ix) a heavy chain variable region (vH) that comprises SEQ ID NO;

328, and a light chain variable region (vL) that comprises SEQ ID NO;

338;

(x) a heavy chain variable region (vH) that comprises SEQ ID NO;

348, and a light chain variable region (vL) that comprises SEQ ID NO;

355;

(xi) a heavy chain variable region (vH) that comprises SEQ ID NO;

362, and a light chain variable region (vL) that comprises SEQ ID NO;

369;

(xii) a heavy chain variable region (vH) that comprises SEQ ID NO;

376, and a light chain variable region (vL) that comprises SEQ ID NO;

383;

(xiii) a heavy chain variable region (vH) that comprises SEQ ID NO;

390, and a light chain variable region (vL) that comprises SEQ ID NO;

397;

(xiv) a heavy chain variable region (vH) that comprises SEQ ID NO;

404, and a light chain variable region (vL) that comprises SEQ ID NO;

411;

(xv) a heavy chain variable region (vH) that comprises SEQ ID NO;

418, and a light chain variable region (vL) that comprises SEQ ID NO;

425;

(xvi) a heavy chain variable region (vH) that comprises SEQ ID NO;

432, and a light chain variable region (vL) that comprises SEQ ID NO;

439;

(xvii) a heavy chain variable region (vH) that comprises SEQ ID NO;

446, and a light chain variable region (vL) that comprises SEQ ID NO;

453;

(xviii) a heavy chain variable region (vH) that comprises SEQ ID NO;

460, and a light chain variable region (vL) that comprises SEQ ID NO;

467;

(xix) a heavy chain variable region (vH) that comprises SEQ ID NO;

474, and a light chain variable region (vL) that comprises SEQ ID NO;

481;

or

(xx) a heavy chain variable region (vH) that comprises SEQ ID NO;

488, and a light chain variable region (vL) that comprises SEQ ID NO;

495.

15. The antibody or fragment thereof, of claim 14 that retains at least 90, 91, 92, 93, 94, 95, 96, 97, 98 or 99% identity over either the variable light or variable heavy region.

16. The antibody of claim 14, wherein one, two, three, four or five, but less than 10 amino acids within the variable light or variable heavy region have been modified, deleted or substituted.

17. The antibody of claim 14 wherein the antibody is a monoclonal antibody, a chimeric antibody, a humanized antibody, a human engineered antibody, a human antibody, a single chain antibody (scFv) or an antibody fragment.

25. A method of neutralizing a BK virus or JC virus infection comprising administering via injection or infusion to a patient in need an effective amount of the antibody or the pharmaceutical composition of claim 7 or claim 14.

26. The method of claim 25, wherein the patient in need is diagnosed with BK viruria or BK viremia.

27. A method of treating or reducing the likelihood of a BK virus or JC virus associated disorder, comprising administering via injection or infusion to a patient in need an effective amount of the antibody or the pharmaceutical composition of claim 7 or claim 14, and wherein the disorder is:

nephropathy, BKVAN, hemorrhagic cystitis (HC), Progressive Multifocal Leukoencephalopathy (PML), granule cell neuronopathy (GCN), interstitial kidney disease, ureteral stenosis, vasculitis, colitis, retinitis, meningitis, and immune reconstitution inflammatory syndrome (IRIS).

28. The method of claim 25 or 27, wherein the antibody or composition is reconstituted prior to injection or infusion.

29. The method of claim 25 or 27, wherein the antibody or the pharmaceutical composition is administered in combination with another therapeutic agent.

30. The method of claim 29, wherein the therapeutic agent is an immunosuppressive agent.

31. The method of claim 30, wherein the immune suppressive agent is:

a monophosphate dehydrogenase inhibitor, a purine synthesis inhibitor, a calcineurin inhibitor or an mTOR inhibitor.

32. The method of claim 31, wherein the immunosuppressive agent is mycophenolate mofetil (MMF), mycophenolate sodium, azathioprine, tacrolimus, sirolimus or cyclosporine.

33. The method of claim 29, wherein the therapeutic agent is an additional anti-VP1 antibody.

42. A nucleic acid that encodes the antibody or antigen binding fragment of claim 7.

43. A vector comprising the nucleic acid of claim 42.

44. A host cell comprising the vector of claim 43.

9. (canceled)

34-41. -41. (canceled)

45. A process for producing an antibody or antigen binding fragment comprising cultivating the host cell and recovering the antibody from the culture.