6OPQ | pdb_00006opq

CD4- and 17-bound HIV-1 Env B41 SOSIP frozen with LMNG


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
N [auth J]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054493 3000071 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054493 3000071 SCOP2B (2022-06-29)
D [auth C]SCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054493 3000071 SCOP2B (2022-06-29)
H [auth F]SCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)
M [auth G]SCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)
C [auth B]SCOP2B SuperfamilyVirus ectodomain 8085612 3001628 SCOP2B (2022-06-29)
K [auth E]SCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)
F [auth D]SCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)
ASCOP2B Superfamilygp120 core 8097270 3001390 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
O [auth M]V-set_8e6opqM1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
J [auth K]V-set_8e6opqK1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
E [auth H]V-set_8e6opqH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
N [auth J]V-set_9e6opqJ1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_9ECOD (1.6)
IV-set_9e6opqI1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_9ECOD (1.6)
D [auth C]V-set_9e6opqC1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_9ECOD (1.6)
H [auth F]GP41_1ste6opqF1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
M [auth G]GP41_1ste6opqG1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
C [auth B]GP41_1ste6opqB1 A: a+b duplicates or obligate multimersX: MPER trimer (From Topology)H: MPER trimer (From Topology)T: MPER trimerF: GP41_1stECOD (1.6)
L [auth O]V-sete6opqO1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
G [auth N]V-sete6opqN1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
B [auth L]V-sete6opqL1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
K [auth E]GP120_3rde6opqE2 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)
K [auth E]GP120_1ste6opqE1 A: a+b two layersX: gp120 inner domain (From Topology)H: gp120 inner domain (From Topology)T: gp120 inner domainF: GP120_1stECOD (1.6)
F [auth D]GP120_3rde6opqD1 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)
F [auth D]GP120_1ste6opqD2 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_3rde6opqA1 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_1ste6opqA2 A: a+b two layersX: gp120 inner domain (From Topology)H: gp120 inner domain (From Topology)T: gp120 inner domainF: GP120_1stECOD (1.6)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
E [auth H],
J [auth K],
O [auth M]
Fab 17b, anti-gp120 [HIV-1] VH-CH1 Homo sapiens (human) IGHV1-69*02, IGHV1-69*04, IGHV1-69*09, IGHJ5*01, IGHJ5*02, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05, IGHG1*12, IGHG1*14, IGHG1*13, IGHG1*09, IGHG1*10, IGHG1*07, IGHG1*11 V-DOMAIN VH, C-DOMAIN CH1 IG FAB-GAMMA-1_KAPPA IMGT (202602-0)
B [auth L],
G [auth N],
L [auth O]
Fab 17b, anti-gp120 [HIV-1] L-KAPPA Homo sapiens (human) IGKV3-15*01, IGKV3D-15*01, IGKJ5*01, IGKC*01 V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA IG FAB-GAMMA-1_KAPPA IMGT (202602-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
E [auth H],
J [auth K],
O [auth M]
Heavy ChainIGHV1 -envelope glycoprotein gp160SAbDab (2026-01-23)
B [auth L],
G [auth N],
L [auth O]
Light ChainIGKV3 Kappaenvelope glycoprotein gp160SAbDab (2026-01-23)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth C],
I,
N [auth J]
PF00047Immunoglobulin domain (ig)Immunoglobulin domainMembers of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-prote ...Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-protein and protein-ligand interactions.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
E [auth H],
J [auth K],
O [auth M]
17b Fab heavy chain---
D [auth C],
I,
N [auth J]
T-cell surface glycoprotein CD4
C [auth B],
H [auth F],
M [auth G]
Envelope glycoprotein gp41
B [auth L],
G [auth N],
L [auth O]
17b Fab light chain---
A,
F [auth D],
K [auth E]
Envelope glycoprotein gp160

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
D [auth C],
I,
N [auth J]
PharosP01730