9C1J | pdb_00009c1j

Rhesus rotavirus (reversed structure at 2.72 Angstrom resolution)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
G [auth B]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8094216	3001935	SCOP2B (2022-06-29)
F [auth A]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8094216	3001935	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)
D [auth 3]	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
D [auth 3]	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
C [auth 2]	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
C [auth 2]	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	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)
T [auth O]	WD40	e9c1jO1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
S [auth N]	WD40	e9c1jN1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
R [auth M]	WD40	e9c1jM1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Q [auth L]	WD40	e9c1jL1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
P [auth K]	WD40	e9c1jK1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
O [auth J]	WD40	e9c1jJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
N [auth I]	WD40	e9c1jI1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
M [auth H]	WD40	e9c1jH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
L [auth G]	WD40	e9c1jG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
KA [auth k]	WD40	e9c1jk1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
K [auth F]	WD40	e9c1jF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
JA [auth j]	WD40	e9c1jj1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
J [auth E]	WD40	e9c1jE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
IA [auth i]	WD40	e9c1ji1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
I [auth D]	WD40	e9c1jD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
HA [auth h]	WD40	e9c1jh1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H [auth C]	WD40	e9c1jC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
GA [auth g]	WD40	e9c1jg1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
FA [auth f]	WD40	e9c1jf1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G [auth B]	WD40	e9c1jB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth A]	WD40	e9c1jA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth 4]	WD40	e9c1j41	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth 3]	WD40	e9c1j31	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth 2]	WD40	e9c1j21	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Z [auth U]	WD40	e9c1jU1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Y [auth T]	WD40	e9c1jT1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
X [auth S]	WD40	e9c1jS1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
W [auth R]	WD40	e9c1jR1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
V [auth Q]	WD40	e9c1jQ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
U [auth P]	WD40	e9c1jP1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
QA [auth y]	WD40	e9c1jy1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
PA [auth x]	WD40	e9c1jx1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
OA [auth w]	WD40	e9c1jw1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
NA [auth v]	WD40	e9c1jv1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
MA [auth u]	WD40	e9c1ju1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
LA [auth t]	WD40	e9c1jt1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
EA [auth Z]	WD40	e9c1jZ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
DA [auth Y]	WD40	e9c1jY1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
CA [auth X]	WD40	e9c1jX1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
BA [auth W]	WD40	e9c1jW1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B [auth 1]	WD40	e9c1j11	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
AA [auth V]	WD40	e9c1jV1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A [auth 0]	WD40	e9c1j01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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
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
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 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 host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle 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
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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
F [auth A], G [auth B]	IPR007779	Rotavirus VP2	Family
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
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

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 : AA0021 , AA0566 : 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

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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.