6OGZ

In situ structure of Rotavirus RNA-dependent RNA polymerase at transcript-elongated state

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)
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 I]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
H	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]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
K [auth L]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
L [auth M]	SCOP2B Superfamily	Reovirus inner layer core protein p3	8097804	3001935	SCOP2B (2022-06-29)
M [auth N]	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)
C [auth A]	EUF08094	e6ogzA4	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)
C [auth A]	Rotavirus_VP1	e6ogzA2	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)
C [auth A]	RdRP_4_1st	e6ogzA3	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)
C [auth A]	RdRP_4_2nd	e6ogzA1	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)
D [auth E]	Rota_VP2	e6ogzE1	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	e6ogzF1	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	e6ogzG1	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 I]	Rota_VP2	e6ogzI1	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	Rota_VP2	e6ogzH1	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	e6ogzJ1	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	e6ogzK1	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	e6ogzL1	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)
L [auth M]	Rota_VP2	e6ogzM1	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)
M [auth N]	Rota_VP2	e6ogzN1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth A]	1.20.120.1390	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (utative)
C [auth A]	1.10.10.1990	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Viral RNA-directed RNA polymerase, 4-helical domain	CATH (utative)
C [auth A]	3.30.70.2480	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (utative)
C [auth A]	1.10.357.80	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (utative)
C [auth A]	3.30.230.140	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (utative)
C [auth A]	1.20.120.1400	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth 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
C [auth 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 [auth B]	RNA (5'-R(PUPAPUPAPUPAPUPAPUPAPUPAPUPAPUPAPUPA)-3')	-	-	-
B [auth C]	RNA (5'-R(PAPUPAPUPAPUPAPUPAPUPAPUPAPUPAPUP*A)-3')	-	-	-
C [auth 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
D [auth E], E [auth F], F [auth G], G [auth I], H, D [auth E], E [auth F], F [auth G], G [auth I], H, I [auth J], J [auth K], K [auth L], L [auth M], M [auth N]	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

InterPro: Protein Family Classification InterPro Database Homepage

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