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5DQ0

Structure of human neuropilin-2 b1 domain with novel and unique zinc binding site

Functional Information from GO Data
ChainGOidnamespacecontents
A0001525biological_processangiogenesis
A0005021molecular_functionvascular endothelial growth factor receptor activity
A0007411biological_processaxon guidance
A0017154molecular_functionsemaphorin receptor activity
A0038084biological_processvascular endothelial growth factor signaling pathway
Functional Information from PDB Data
site_idAC1
Number of Residues4
Detailsbinding site for residue ZN A 501
ChainResidue
ATYR375
AHIS377
AHIS399
ACL505

site_idAC2
Number of Residues4
Detailsbinding site for residue ZN A 502
ChainResidue
AGLU284
AHIS312
AHIS415
ACL504

site_idAC3
Number of Residues4
Detailsbinding site for residue ZN A 503
ChainResidue
AGLU370
AHIS381
AHOH718
ALYS362

site_idAC4
Number of Residues4
Detailsbinding site for residue CL A 504
ChainResidue
AGLU284
AHIS312
AHIS415
AZN502

site_idAC5
Number of Residues5
Detailsbinding site for residue CL A 505
ChainResidue
ATYR375
AHIS377
ALEU398
AHIS399
AZN501

site_idAC6
Number of Residues1
Detailsbinding site for residue EDO A 506
ChainResidue
AHIS399

site_idAC7
Number of Residues4
Detailsbinding site for residue EDO A 507
ChainResidue
AHIS377
ALYS382
AHOH602
AHOH603

site_idAC8
Number of Residues6
Detailsbinding site for residue MES A 508
ChainResidue
ATRP304
ASER349
ATHR352
AASN354
ATYR356
AHOH614

Functional Information from PROSITE/UniProt
site_idPS01285
Number of Residues30
DetailsFA58C_1 Coagulation factors 5/8 type C domain (FA58C) signature 1. GWtpnldsnke......YLqVDlrfltmLtaIaTQG
ChainResidueDetails
AGLY317-GLY346

site_idPS01286
Number of Residues17
DetailsFA58C_2 Coagulation factors 5/8 type C domain (FA58C) signature 2. Pqtwhsgia..LRlELfGC
ChainResidueDetails
APRO411-CYS427

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues150
DetailsDomain: {"description":"F5/8 type C 1","evidences":[{"source":"PROSITE-ProRule","id":"PRU00081","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues19
DetailsRegion: {"description":"Disordered","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues12
DetailsCompositional bias: {"description":"Polar residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails

245663

PDB entries from 2025-12-03

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