9C1H | pdb_00009c1h

Rhesus rotavirus (upright structure at 2.88 Angstrom resolution)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth 2]	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
C [auth 2]	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8040579	3000120	SCOP2B (2022-06-29)
C [auth 2]	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
D [auth 3]	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
D [auth 3]	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8040579	3000120	SCOP2B (2022-06-29)
D [auth 3]	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
E [auth 4]	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
E [auth 4]	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
F [auth A]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8094216	3001935	SCOP2B (2022-06-29)
G [auth B]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8094216	3001935	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth 2], D [auth 3], E [auth 4]	PF00426	Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain (VP4_haemagglut)	Outer Capsid protein VP4 (Hemagglutinin) Concanavalin-like domain	This entry represents the N-terminal concanavalin-like domain from the VP4 protein of rotavirus.	Domain
C [auth 2], D [auth 3], E [auth 4]	PF17477	Rotavirus VP4 membrane interaction domain (Rota_VP4_MID)	Rotavirus VP4 membrane interaction domain	This entry represents the VP4 membrane interaction domain.	Domain
C [auth 2], D [auth 3], E [auth 4]	PF17478	Rotavirus VP4 helical domain (VP4_helical)	Rotavirus VP4 helical domain		Domain
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	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 [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], DA [auth Y], EA [auth Z], LA [auth t], MA [auth u], NA [auth v], OA [auth w], PA [auth x], QA [auth y], U [auth P], V [auth Q], W [auth R], X [auth S], Y [auth T], Z [auth U]	Outer capsid glycoprotein VP7	cation binding ion binding binding metal ion binding small molecule binding	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell endoplasmic reticulum lumen host intracellular region viral capsid icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell endoplasmic reticulum lumen host intracellular region viral capsid icosahedral viral capsid virion component viral outer capsid T=13 icosahedral viral capsid
C [auth 2], D [auth 3], E [auth 4]	Outer capsid protein VP4	-	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction 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 permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction 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 permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell symbiont entry into host disruption of anatomical structure in another organism	host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle membrane host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell plasma membrane host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle membrane host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell plasma membrane host cell membrane viral capsid icosahedral viral capsid virion component viral outer capsid host cell endoplasmic reticulum host cell rough endoplasmic reticulum
F [auth A], G [auth B]	Inner capsid protein VP2	RNA binding binding nucleic acid binding	-	viral capsid icosahedral viral capsid virion component viral inner capsid viral nucleocapsid T=2 icosahedral viral capsid
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	Intermediate capsid protein 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 [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], DA [auth Y], EA [auth Z], LA [auth t], MA [auth u], NA [auth v], OA [auth w], PA [auth x], QA [auth y], U [auth P], V [auth Q], W [auth R], X [auth S], Y [auth T], Z [auth U]	IPR042207	Glycoprotein VP7, domain 1	Homologous Superfamily
A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], DA [auth Y], EA [auth Z], LA [auth t], MA [auth u], NA [auth v], OA [auth w], PA [auth x], QA [auth y], U [auth P], V [auth Q], W [auth R], X [auth S], Y [auth T], Z [auth U]	IPR001963	Glycoprotein VP7	Family
A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], A [auth 0], AA [auth V], B [auth 1], BA [auth W], CA [auth X], DA [auth Y], EA [auth Z], LA [auth t], MA [auth u], NA [auth v], OA [auth w], PA [auth x], QA [auth y], U [auth P], V [auth Q], W [auth R], X [auth S], Y [auth T], Z [auth U]	IPR042210	Glycoprotein VP7, domain 2	Homologous Superfamily
C [auth 2], D [auth 3], E [auth 4]	IPR000416	Haemagglutinin outer capsid protein VP4, concanavalin-like domain	Domain
C [auth 2], D [auth 3], E [auth 4]	IPR035330	Rotavirus VP4, membrane interaction domain	Domain
C [auth 2], D [auth 3], E [auth 4]	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
C [auth 2], D [auth 3], E [auth 4]	IPR035329	Rotavirus VP4 helical domain	Domain
C [auth 2], D [auth 3], E [auth 4]	IPR042546	Outer capsid protein VP4	Family
C [auth 2], D [auth 3], E [auth 4]	IPR038017	Rotavirus VP4, membrane interaction domain superfamily	Homologous Superfamily
F [auth A], G [auth B]	IPR007779	Rotavirus VP2	Family
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	IPR001385	Rotavirus A/C, major capsid protein VP6	Family
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	IPR008935	Virus capsid protein, alpha-helical	Homologous Superfamily
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], FA [auth f], GA [auth g], H [auth C], HA [auth h], I [auth D], IA [auth i], J [auth E], JA [auth j], K [auth F], KA [auth k], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O]	FME	Parent Component: MET RESID: AA0021 , AA0566 PSI-MOD : N-formyl-L-methionine residue MOD:00030 , N-formyl-L-methionine (Met) MOD:00482 , N-[(L-histidin-1'-yl)methyl]-L-methionine (fMet) MOD:01890 , N-[(L-histidin-1'-yl)methyl]-L-methionine (Met) MOD:01891

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.