5X5W | pdb_00005x5w

Crystal structure of pseudorabies virus glycoprotein D

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d5x5wd_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)
B	d5x5wb_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	V-set_15	e5x5wD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_15	ECOD (1.6)
B	V-set_15	e5x5wB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_15	ECOD (1.6)
C	Herpes_glycop_D	e5x5wC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Herpes_glycop_D	ECOD (1.6)
A	Herpes_glycop_D	e5x5wA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Herpes_glycop_D	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	Nectin-1	protein binding binding virus receptor activity exogenous protein binding cell adhesion molecule binding cell adhesion mediator activity	developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development cochlea development inner ear morphogenesis developmental process ear morphogenesis embryonic organ morphogenesis multicellular organismal process ear development sensory organ development animal organ development embryonic morphogenesis embryo development multicellular organism development anatomical structure morphogenesis sensory organ morphogenesis inner ear development cochlea development inner ear morphogenesis anatomical structure development cochlea morphogenesis animal organ morphogenesis embryonic organ development cell adhesion cell-cell adhesion homophilic cell-cell adhesion cellular process localization macromolecule localization intracellular protein localization protein localization to cell junction regulation of biological process biological process involved in interspecies interaction between organisms positive regulation of viral life cycle positive regulation of viral process biological regulation positive regulation of biological process viral life cycle modulation by symbiont of entry into host biological process involved in interaction with host biological process involved in symbiotic interaction regulation of viral entry into host cell regulation of viral life cycle regulation of viral process symbiont entry into host cell viral process symbiont entry into host positive regulation of viral entry into host cell positive regulation by symbiont of entry into host regulation of biological process involved in symbiotic interaction heterophilic cell-cell adhesion	cell-cell junction adherens junction cellular anatomical structure anchoring junction cell junction cell periphery plasma membrane membrane presynapse synapse presynaptic membrane plasma membrane region synaptic membrane cell projection
A, C	GD	protein binding binding molecular function activator activity signaling receptor binding molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell entry receptor-mediated virion attachment 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 cellular anatomical structure membrane virion membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR051427	Nectin and Nectin-like	Family
B, D	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B, D	IPR003598	Immunoglobulin subtype 2	Domain
B, D	IPR041850	Nectin-1, second immunoglobulin domain	Domain
B, D	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B, D	IPR013106	Immunoglobulin V-set domain	Domain
B, D	IPR003599	Immunoglobulin domain subtype	Domain
B, D	IPR041849	Nectin-1, first immunoglobulin variable domain	Domain
B, D	IPR013162	CD80-like, immunoglobulin C2-set	Domain
B, D	IPR007110	Immunoglobulin-like domain	Domain
A, C	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, C	IPR002896	Herpesvirus glycoprotein D/GG/GX domain	Domain

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.