3RA4 | pdb_00003ra4

Structural studies of AAV8 capsid transitions associated with endosomal trafficking

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	d3ra4a_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(adeno-associated virus 8 ) [TaxId: 202813 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	ssDNA viruses	8071440	3000931	SCOP2B (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	Ion_trans_2	e3ra4A1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth D]	DNA (5'-D(CPA)-3')	-	-	-
A	Capsid protein	structural molecule activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	-	viral capsid icosahedral viral capsid virion component T=1 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013607	Phospholipase A2-like domain	Domain
A	IPR016184	Capsid/spike protein, ssDNA virus	Homologous Superfamily
A	IPR001403	Coat protein VP1/VP2, Parvovirus	Domain
A	IPR036952	Parvovirus coat protein VP1/VP2	Homologous Superfamily

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.