1QHD

CRYSTAL STRUCTURE OF VP6, THE MAJOR CAPSID PROTEIN OF GROUP A ROTAVIRUS

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1qhda1	All alpha proteins	A virus capsid protein alpha-helical domain	A virus capsid protein alpha-helical domain	vp6, the major capsid protein of group A rotavirus	vp6, the major capsid protein of group A rotavirus	(Bovine rotavirus strain RF ) [TaxId: 10933 ],	SCOPe (2.08)
A	d1qhda2	All beta proteins	Viral protein domain	Viral protein domain	Top domain of virus capsid protein	vp6, the major capsid protein of group A rotavirus	(Bovine rotavirus strain RF ) [TaxId: 10933 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	vp6, the major capsid protein of group A rotavirus	8022204	4003077	SCOP2 (2022-06-29)
A	SCOP2 Family	Top domain of rotavirus capsid protein-like	8022207	4002501	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	A virus capsid protein alpha-helical domain	8034584	3001154	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Top domain of rotavirus capsid protein-like	8034587	3002477	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	Rota_Capsid_VP6_2nd	e1qhdA1	A: beta sandwiches	X: jelly-roll	H: Viral protein domain (From Topology)	T: Viral protein domain	F: Rota_Capsid_VP6_2nd	ECOD (1.6)
A	Rota_Capsid_VP6_1st	e1qhdA2	A: alpha bundles	X: A virus capsid protein alpha-helical domain (From Topology)	H: A virus capsid protein alpha-helical domain (From Topology)	T: A virus capsid protein alpha-helical domain	F: Rota_Capsid_VP6_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.170	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
A	1.10.1350.10	Mainly Alpha	Orthogonal Bundle	Viral capsid alpha domain	Viral capsid alpha domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00980	Rotavirus major capsid protein VP6 (Rota_Capsid_VP6)	Rotavirus major capsid protein VP6	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	VIRAL CAPSID VP6	structural molecule activity cation binding ion binding binding metal ion binding small molecule binding host cell surface binding host cell surface receptor binding	membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane viral process cellular process cellular component organization or biogenesis membrane fusion involved in viral entry into host cell	virion component viral membrane viral envelope viral capsid icosahedral viral capsid T=13 icosahedral viral capsid viral intermediate capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001385	Rotavirus A/C, major capsid protein VP6	Family
A	IPR008935	Virus capsid protein, alpha-helical	Homologous Superfamily
A	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359

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.