1LP3 | pdb_00001lp3

The Atomic Structure of Adeno-Associated Virus (AAV-2), a Vector for Human Gene Therapy

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1lp3a_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	Dependovirus capsid protein	(adeno-associated virus 2 ) [TaxId: 10804 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Parvovirinae-like VP	8029037	4003479	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ssDNA viruses	8041416	3000931	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	Parvo_coat	e1lp3A1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Parvo_coat	ECOD (1.6)

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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00740	Parvovirus coat protein VP1/VP2 (VP1_2)	Parvovirus coat protein VP1/VP2	This entry describes a common domain found in VP1 and VP2 Parvovirus coat proteins which together form a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-te ...	This entry describes a common domain found in VP1 and VP2 Parvovirus coat proteins which together form a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminal. VP2 is involved in packaging of the viral DNA [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	AAV-2 capsid protein	structural molecule activity	import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis viral process symbiont entry into host import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis viral process symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of host membrane symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane disruption of anatomical structure in another organism	viral capsid icosahedral viral capsid virion component T=1 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part viral capsid icosahedral viral capsid virion component T=1 icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part host cell nucleus other organism part host cell nucleolus host cell nuclear part host intracellular organelle cellular anatomical structure host cell part host intracellular region

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.