5KOV

Crystal structure of the human astrovirus 2 capsid protein spike in complex with a single chain variable fragment of an astrovirus neutralizing antibody at 3.24-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)
A	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
E [auth H]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
I [auth N]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
L [auth M]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
M [auth S]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	SCOP2B (2022-06-29)
P [auth T]	SCOP2B Superfamily	Norovirus P2 domain-like	8093102	3002678	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	Astro_capsid_p	e5kovA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
D [auth B]	Astro_capsid_p	e5kovB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
E [auth H]	Astro_capsid_p	e5kovH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
H [auth G]	Astro_capsid_p	e5kovG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
I [auth N]	Astro_capsid_p	e5kovN1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
L [auth M]	Astro_capsid_p	e5kovM1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
M [auth S]	Astro_capsid_p	e5kovS1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
P [auth T]	Astro_capsid_p	e5kovT1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Astro_capsid_p	ECOD (1.6)
B [auth C]	V-set_8	e5kovC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
B [auth C]	V-set	e5kovC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
C [auth E]	V-set_8	e5kovE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
C [auth E]	V-set	e5kovE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
F [auth K]	V-set_8	e5kovK2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
F [auth K]	V-set	e5kovK1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
G [auth I]	V-set_8	e5kovI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
G [auth I]	V-set	e5kovI2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
J [auth Q]	V-set_8	e5kovQ1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
K [auth O]	V-set_8	e5kovO2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
K [auth O]	V-set	e5kovO1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
N [auth W]	V-set_8	e5kovW1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
O [auth U]	V-set_8	e5kovU2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
O [auth U]	V-set	e5kovU1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth E]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth K]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
K [auth O]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
O [auth U]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth B], E [auth H], H [auth G], I [auth N], A, D [auth B], E [auth H], H [auth G], I [auth N], L [auth M], M [auth S], P [auth T]	PF12226	Turkey astrovirus capsid protein (Astro_capsid_p)	Turkey astrovirus capsid protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth B], E [auth H], H [auth G], I [auth N], A, D [auth B], E [auth H], H [auth G], I [auth N], L [auth M], M [auth S], P [auth T]	Capsid polyprotein VP90	-	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 transport of virus	viral capsid T=3 icosahedral viral capsid icosahedral viral capsid virion component
B [auth C], C [auth E], F [auth K], G [auth I], J [auth Q], B [auth C], C [auth E], F [auth K], G [auth I], J [auth Q], K [auth O], N [auth W], O [auth U]	PL-2 scFv chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth B], E [auth H], H [auth G], I [auth N], A, D [auth B], E [auth H], H [auth G], I [auth N], L [auth M], M [auth S], P [auth T]	IPR004337	Astrovirus capsid protein, inner core domain	Domain
A, D [auth B], E [auth H], H [auth G], I [auth N], A, D [auth B], E [auth H], H [auth G], I [auth N], L [auth M], M [auth S], P [auth T]	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, D [auth B], E [auth H], H [auth G], I [auth N], A, D [auth B], E [auth H], H [auth G], I [auth N], L [auth M], M [auth S], P [auth T]	IPR022027	Turkey astrovirus capsid protein	Family