8DVD | pdb_00008dvd

Cryo-EM structure of SIVmac239 SOS-2P Env trimer in complex with human bNAb PGT145

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H [auth L]	MCM_OB	e8dvdL1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: MCM_OB	ECOD (v295)
F [auth G]	MCM_OB	e8dvdG1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: MCM_OB	ECOD (v295)
E [auth F]	MCM_OB	e8dvdF1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: MCM_OB	ECOD (v295)
D [auth E]	MCM_OB	e8dvdE1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: MCM_OB	ECOD (v295)
C	Ferritin	e8dvdC1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Ferritin	ECOD (v295)
B	Ferritin	e8dvdB1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Ferritin	ECOD (v295)
A	TRPM2	e8dvdA01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: TRPM2	ECOD (v295)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
H [auth L]	Light Chain	IGKV2	Kappa	envelope glycoprotein gp160 \| envelope glycoprotein gp160 \| envelope glycoprotein gp160	SAbDab (2026-06-26)
G [auth H]	Heavy Chain	IGHV1	-	envelope glycoprotein gp160 \| envelope glycoprotein gp160 \| envelope glycoprotein gp160	SAbDab (2026-06-26)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
H [auth L]	PGT145 Light	-	-	-
G [auth H]	PGT145 Heavy	-	-	-
D [auth E], E [auth F], F [auth G]	Envelope glycoprotein gp160	structural molecule activity	viral process membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host	virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle host cell endosome membrane host cell cytoplasm host cell endosome host intracellular region
A, B, C	Envelope glycoprotein gp160	structural molecule activity	viral process membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host	virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle host cell endosome membrane host cell cytoplasm host cell endosome host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth E], E [auth F], F [auth G]	IPR000777	Human immunodeficiency virus 1, envelope glycoprotein Gp120	Domain
D [auth E], E [auth F], F [auth G]	IPR036377	Gp120 core superfamily	Homologous Superfamily
D [auth E], E [auth F], F [auth G]	IPR000328	Retroviral envelope protein GP41-like	Domain
A, B, C	IPR000777	Human immunodeficiency virus 1, envelope glycoprotein Gp120	Domain
A, B, C	IPR036377	Gp120 core superfamily	Homologous Superfamily
A, B, C	IPR000328	Retroviral envelope protein GP41-like	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
G [auth H]	TYS	Parent Component: TYR : AA0172 : O4'-sulfo-L-tyrosine MOD:00181

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.