6OGY

In situ structure of Rotavirus RNA-dependent RNA polymerase at duplex-open state

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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 [auth C]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
F [auth G]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
G [auth H]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
H [auth I]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
I [auth J]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
J [auth K]	SCOP2 Family	Rotavirus core (VP2)	8097803	4005324	SCOP2 (2022-06-29)
J [auth K]	SCOP2 Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2 (2022-06-29)
K [auth L]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	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	EUF08094	e6ogyA2	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: EUF08094	ECOD (1.6)
A	Rotavirus_VP1	e6ogyA3	A: alpha complex topology	X: C-terminal additional helical subdomain in reovirus polymerase lambda3 (From Topology)	H: C-terminal additional helical subdomain in reovirus polymerase lambda3 (From Topology)	T: C-terminal additional helical subdomain in reovirus polymerase lambda3	F: Rotavirus_VP1	ECOD (1.6)
A	RdRP_4_1st	e6ogyA1	A: alpha complex topology	X: N-terminal additional helical subdomain in reovirus polymerase lambda3 (From Homology)	H: N-terminal additional helical subdomain in reovirus polymerase lambda3	T: N-terminal additional helical subdomain in reovirus polymerase lambda3	F: RdRP_4_1st	ECOD (1.6)
A	RdRP_4_2nd	e6ogyA4	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: RdRP_4_2nd	ECOD (1.6)
B [auth C]	Rota_VP2	e6ogyC1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
C [auth D]	Rota_VP2	e6ogyD1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
D [auth E]	Rota_VP2	e6ogyE1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
E [auth F]	Rota_VP2	e6ogyF1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
F [auth G]	Rota_VP2	e6ogyG1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
G [auth H]	Rota_VP2	e6ogyH1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
H [auth I]	Rota_VP2	e6ogyI1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
I [auth J]	Rota_VP2	e6ogyJ1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
J [auth K]	Rota_VP2	e6ogyK1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)
K [auth L]	Rota_VP2	e6ogyL1	A: a+b complex topology	X: Inner layer core protein p3-related (From Topology)	H: Inner layer core protein p3-related (From Topology)	T: Inner layer core protein p3-related	F: Rota_VP2	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF12289	Rotavirus VP1 C-terminal domain (Rotavirus_VP1)	Rotavirus VP1 C-terminal domain	This domain is the C-terminal bracelet domain of the rotavirus VP1 RNA-directed RNA polymerase. It surrounds the exit tunnel for dsRNA produced by replication and for the RNA template for transcription [1].	Domain
A	PF02123	Viral RNA-directed RNA-polymerase (RdRP_4)	Viral RNA-directed RNA-polymerase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RNA-dependent RNA polymerase of rotavirus A	5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process viral genome replication viral process viral life cycle	virion component
B [auth C], C [auth D], D [auth E], E [auth F], F [auth G], B [auth C], C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L]	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
L [auth M]	DNA/RNA (5'-D((GTG))-R(PGP*C)-3')	-	-	-
M [auth N]	RNA (5'-R(PAPGPCPC)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001795	RNA-directed RNA polymerase, luteovirus	Family
A	IPR007097	RNA-directed RNA polymerase, reovirus	Domain
A	IPR042032	Viral RNA-directed RNA polymerase, 4-helical domain	Homologous Superfamily
A	IPR022071	Rotavirus VP1 RNA-directed RNA polymerase, C-terminal	Domain
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
B [auth C], C [auth D], D [auth E], E [auth F], F [auth G], B [auth C], C [auth D], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J], J [auth K], K [auth L]	IPR007779	Rotavirus VP2	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.