6LSA

Complex structure of bovine herpesvirus 1 glycoprotein D and bovine nectin-1 IgV

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)
A	d6lsaa_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
C [auth B]	d6lsab_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	V-set_15	e6lsaA1	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 [auth B]	V-set_15	e6lsaB1	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 [auth F]	Herpes_glycop_D	e6lsaF1	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)
D [auth C]	Herpes_glycop_D	e6lsaC1	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)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B [auth F]	2.70.230.10	Mainly Beta	Distorted Sandwich	Glycoprotein D	Chain: A	CATH (utative)
D [auth C]	2.70.230.10	Mainly Beta	Distorted Sandwich	Glycoprotein D	Chain: A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	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
B [auth F], D [auth C]	PF01537	Herpesvirus glycoprotein D/GG/GX domain (Herpes_glycop_D)	Herpesvirus glycoprotein D/GG/GX domain	This domain is found in several Herpes viruses glycoproteins. This is a family includes glycoprotein-D (gD or gIV) which is common to herpes simplex virus types 1 and 2, as well as equine herpes, bovine herpes and Marek's disease virus. Glycoprotein- ...	This domain is found in several Herpes viruses glycoproteins. This is a family includes glycoprotein-D (gD or gIV) which is common to herpes simplex virus types 1 and 2, as well as equine herpes, bovine herpes and Marek's disease virus. Glycoprotein-D has been found on the viral envelope and the plasma membrane of infected cells. and gD immunisation can produce an immune response to bovine herpes virus (BHV-1). This response is stronger than that of the other major glycoproteins gB (gI) and gC (gIII) in BHV-1. Glycoprotein G (gG)is one of the seven external glycoproteins of HSV1 and HSV2. This family also contains the glycoprotein GX, (gX), initially identified in Pseudorabies virus.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	Nectin cell adhesion molecule 1	-	cell adhesion cell-cell adhesion cellular process cell-cell adhesion via plasma-membrane adhesion molecules homophilic cell adhesion via plasma membrane adhesion molecules protein localization localization cellular localization cellular macromolecule localization macromolecule localization protein localization to cell junction heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	cell-cell junction adherens junction cellular anatomical structure anchoring junction cell junction membrane
B [auth F], D [auth C]	Envelope glycoprotein D	-	-	virion component viral membrane viral envelope cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR051427	Nectin and Nectin-like	Family
A, C [auth B]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, C [auth B]	IPR003598	Immunoglobulin subtype 2	Domain
A, C [auth B]	IPR041850	Nectin-1, second immunoglobulin domain	Domain
A, C [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, C [auth B]	IPR013106	Immunoglobulin V-set domain	Domain
A, C [auth B]	IPR003599	Immunoglobulin domain subtype	Domain
A, C [auth B]	IPR041849	Nectin-1, first immunoglobulin variable domain	Domain
A, C [auth B]	IPR013162	CD80-like, immunoglobulin C2-set	Domain
A, C [auth B]	IPR007110	Immunoglobulin-like domain	Domain
B [auth F], D [auth C]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth F], D [auth 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.