6U59 | pdb_00006u59

HIV-1 B41 SOSIP.664 in complex with rabbit antibody 13B


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
E [auth C]SCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)
ASCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)
I [auth G]SCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)
F [auth D]SCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)
J [auth I]SCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
E [auth C]GP120_2nde6u59C2 A: beta barrelsX: V1/V2 domain in HIV gp120 (From Topology)H: V1/V2 domain in HIV gp120 (From Topology)T: V1/V2 domain in HIV gp120F: GP120_2ndECOD (1.6)
E [auth C]GP120_3rde6u59C1 A: a+b two layersX: Ribosomal protein L31e-likeH: Ribosomal protein L31e/gp120 outer domain (From Topology)T: Ribosomal protein L31e/gp120 outer domainF: GP120_3rdECOD (1.6)
E [auth C]GP120_1ste6u59C3 A: a+b two layersX: gp120 inner domain (From Topology)H: gp120 inner domain (From Topology)T: gp120 inner domainF: GP120_1stECOD (1.6)
AGP120_2nde6u59A3 A: beta barrelsX: V1/V2 domain in HIV gp120 (From Topology)H: V1/V2 domain in HIV gp120 (From Topology)T: V1/V2 domain in HIV gp120F: GP120_2ndECOD (1.6)
AGP120_3rde6u59A1 A: a+b two layersX: Ribosomal protein L31e-likeH: Ribosomal protein L31e/gp120 outer domain (From Topology)T: Ribosomal protein L31e/gp120 outer domainF: GP120_3rdECOD (1.6)
AGP120_1ste6u59A2 A: a+b two layersX: gp120 inner domain (From Topology)H: gp120 inner domain (From Topology)T: gp120 inner domainF: GP120_1stECOD (1.6)
I [auth G]GP120_2nde6u59G1 A: beta barrelsX: V1/V2 domain in HIV gp120 (From Topology)H: V1/V2 domain in HIV gp120 (From Topology)T: V1/V2 domain in HIV gp120F: GP120_2ndECOD (1.6)
I [auth G]GP120_3rde6u59G3 A: a+b two layersX: Ribosomal protein L31e-likeH: Ribosomal protein L31e/gp120 outer domain (From Topology)T: Ribosomal protein L31e/gp120 outer domainF: GP120_3rdECOD (1.6)
I [auth G]GP120_1ste6u59G2 A: a+b two layersX: gp120 inner domain (From Topology)H: gp120 inner domain (From Topology)T: gp120 inner domainF: GP120_1stECOD (1.6)
BGP41_1ste6u59B1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
F [auth D]GP41_1ste6u59D1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
J [auth I]GP41_1ste6u59I1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
G [auth E]V-sete6u59E1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
C [auth L]V-sete6u59L1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
K [auth J]V-sete6u59J1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
D [auth H]V-set_12e6u59H1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
H [auth F]V-set_12e6u59F1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)
L [auth K]V-set_12e6u59K1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_12ECOD (1.6)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
C [auth L],
G [auth E],
K [auth J]
Fv 13B V-KAPPA Homo sapiens (human) IGKV1S2*02, IGKJ1-2*02, IGKJ1-2*01 V-DOMAIN V-KAPPA IG FV-HEAVY_KAPPA IMGT (202524-0)
D [auth H],
H [auth F],
L [auth K]
Fv 13B VH Homo sapiens (human) IGHV1S45*01, IGHJ4*01 V-DOMAIN VH IG FV-HEAVY_KAPPA IMGT (202524-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
C [auth L],
G [auth E],
K [auth J]
Light ChainIGKV1 Kappasosip.664 gp120,sosip.664 gp120SAbDab (2025-06-27)
D [auth H],
H [auth F],
L [auth K]
Heavy ChainIGHV1 -sosip.664 gp120,sosip.664 gp120SAbDab (2025-06-27)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A,
E [auth C],
I [auth G]
PF00516Envelope glycoprotein GP120 (GP120)Envelope glycoprotein GP120The envelope glycoprotein Gp160 of HIV1 is cleaved into the surface protein Gp120 and the transmembrane protein Gp41. The entry of HIV requires interaction of viral GP120 with the CD4 glycoprotein (Swiss:P01730) and a chemokine receptor on the cell s ...The envelope glycoprotein Gp160 of HIV1 is cleaved into the surface protein Gp120 and the transmembrane protein Gp41. The entry of HIV requires interaction of viral GP120 with the CD4 glycoprotein (Swiss:P01730) and a chemokine receptor on the cell surface [1]. Gp160 us proteolytically cleaved n the trans-Golgi and activated by cellular furin or furin-like proteases to produce gp120 and gp41 [1,2].
Domain
B,
F [auth D],
J [auth I]
PF00517Retroviral envelope protein (GP41)Retroviral envelope protein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
E [auth C],
I [auth G]
SOSIP.664 gp120,SOSIP.664 gp120
B,
F [auth D],
J [auth I]
SOSIP.664 gp41
C [auth L],
G [auth E],
K [auth J]
rabbit antibody 13B Fragment antigen binding light chain---
D [auth H],
H [auth F],
L [auth K]
rabbit antibody 13B Fragment antigen binding heavy chain---