5V2S

Crystal structure of glycoprotein B from Herpes Simplex Virus type I

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Glycoprotein B-like	8098471	4002622	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Viral glycoprotein ectodomain-like	8098472	3001498	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Glycoprot_B_PH1	e5v2sA5	A: beta barrels	X: PH domain-like	H: first barrel domain in viral glycoproteins (From Topology)	T: first barrel domain in viral glycoproteins	F: Glycoprot_B_PH1	ECOD (1.6)
A	Glycoprot_B_PH2	e5v2sA2	A: beta barrels	X: PH domain-like	H: second barrel domain in viral glycoproteins (From Topology)	T: second barrel domain in viral glycoproteins	F: Glycoprot_B_PH2	ECOD (1.6)
A	Glycoprotein_B	e5v2sA1	A: beta complex topology	X: Viral glycoprotein ectodomain-like (From Topology)	H: Viral glycoprotein ectodomain-like (From Topology)	T: Viral glycoprotein ectodomain-like	F: Glycoprotein_B	ECOD (1.6)
A	UNK_F_TYPE	e5v2sA4	A: alpha duplicates or obligate multimers	X: TM trimerization region of envelope glycoprotein B (From Topology)	H: TM trimerization region of envelope glycoprotein B (From Topology)	T: TM trimerization region of envelope glycoprotein B	F: UNK_F_TYPE	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.1890	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (utative)
A	2.30.29.100	Mainly Beta	Roll	PH-domain like		CATH (utative)
A	2.30.30.1230	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00606	Herpesvirus Glycoprotein B ectodomain (Glycoprotein_B)	Herpesvirus Glycoprotein B ectodomain	This domain corresponds to the ectodomain of glycoprotein B according to ECOD.	Domain
A	PF17417	Herpesvirus Glycoprotein B PH-like domain (Glycoprot_B_PH2)	Herpesvirus Glycoprotein B PH-like domain	This domain corresponds to the second PH-like domain in herpesvirus glycoprotein B.	Domain
A	PF17416	Herpesvirus Glycoprotein B (Glycoprot_B_PH1)	Herpesvirus Glycoprotein B	This domain has a PH-like fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Envelope glycoprotein B	-	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process 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 membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane virion membrane host intracellular part host cell Golgi membrane host cell Golgi apparatus host cell cytoplasm part virion component viral membrane viral envelope membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane virion membrane host intracellular part host cell Golgi membrane host cell Golgi apparatus host cell cytoplasm part host cell cytoplasm host cell endomembrane system host intracellular region host intracellular membrane-bounded organelle host intracellular organelle host cell endosome membrane host cell endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000234	Herpesvirus Glycoprotein B	Family
A	IPR035381	Herpesvirus Glycoprotein B, PH-like domain 2	Domain
A	IPR035377	Herpesvirus Glycoprotein B, PH-like domain 1	Domain
A	IPR038631	Herpesvirus Glycoprotein B, PH-like domain 2 superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Bitopic proteins	Viral membrane fusion glycoprotein	Herpesvirus glycoprotein B

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

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.