5EWN | pdb_00005ewn

Crystal structure of the human astrovirus 1 capsid protein core domain at 2.6 A resolution

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Astrovirus VP-like	8051124	4007207	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Positive stranded ssRNA viruses-like	8091687	3000918	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Astrovirus capsid protein, P1 domain-like	8091689	3002535	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	Astro_capsid_N_2nd	e5ewnA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Astro_capsid_N_2nd	ECOD (1.6)
A	Astro_capsid_N_1st	e5ewnA1	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: Astro_capsid_N_1st	ECOD (1.6)
B	Astro_capsid_N_2nd	e5ewnB2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Phage tail proteins	F: Astro_capsid_N_2nd	ECOD (1.6)
B	Astro_capsid_N_1st	e5ewnB1	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: Astro_capsid_N_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (utative)
B	2.60.120.20	Mainly Beta	Sandwich	Jelly Rolls		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03115	Astrovirus capsid protein nucleoplasmin-like domain (Astro_capsid_N)	Astrovirus capsid protein nucleoplasmin-like domain	This product is encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The 87kD precursor protein undergoes an intracellular cleavage to form a 79kD protein. Subsequently, extracellular trypsin cleavage yields the three proteins fo ...	This product is encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The 87kD precursor protein undergoes an intracellular cleavage to form a 79kD protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Structural protein	-	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	viral capsid T=3 icosahedral viral capsid icosahedral viral capsid virion component host extracellular space host cellular component cellular anatomical structure other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004337	Astrovirus capsid protein, inner core domain	Domain
A, B	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, B	IPR022027	Turkey astrovirus capsid protein	Family

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.