7YF0

In situ structure of polymerase complex of mammalian reovirus in the core

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth D]	PF22033	e7yf0D1	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: PF22033	ECOD (1.6)
R [auth a]	PF22033	e7yf0a1	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: PF22033	ECOD (1.6)
S [auth b]	PF22033	e7yf0b1	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: PF22033	ECOD (1.6)
T [auth c]	PF22033	e7yf0c1	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: PF22033	ECOD (1.6)
U [auth d]	PF22033	e7yf0d1	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: PF22033	ECOD (1.6)
K [auth H]	PF21062	e7yf0H5	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062	ECOD (1.6)
K [auth H]	PF21063	e7yf0H2	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
K [auth H]	PF21064	e7yf0H4	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
K [auth H]	PF21065	e7yf0H1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
K [auth H]	PF21066	e7yf0H3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
M [auth J]	PF21062	e7yf0J5	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062	ECOD (1.6)
M [auth J]	PF21063	e7yf0J2	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
M [auth J]	PF21064	e7yf0J4	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
M [auth J]	PF21065	e7yf0J1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
M [auth J]	PF21066	e7yf0J3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
N [auth K]	PF21062	e7yf0K5	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062	ECOD (1.6)
N [auth K]	PF21063	e7yf0K2	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
N [auth K]	PF21064	e7yf0K4	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
N [auth K]	PF21065	e7yf0K1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
N [auth K]	PF21066	e7yf0K3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
L [auth I]	PF21062	e7yf0I5	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062	ECOD (1.6)
L [auth I]	PF21063	e7yf0I2	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
L [auth I]	PF21064	e7yf0I4	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
L [auth I]	PF21065	e7yf0I1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
L [auth I]	PF21066	e7yf0I3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
O [auth L]	PF21062	e7yf0L5	A: a+b two layers	X: ferredoxin-like domain in VP1 (From Topology)	H: ferredoxin-like domain in VP1 (From Topology)	T: ferredoxin-like domain in VP1	F: PF21062	ECOD (1.6)
O [auth L]	PF21063	e7yf0L2	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: PF21063	ECOD (1.6)
O [auth L]	PF21064	e7yf0L4	A: a+b complex topology	X: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	H: Rotavirus NSP2 fragment, N-terminal domain (From Topology)	T: Rotavirus NSP2 fragment, N-terminal domain	F: PF21064	ECOD (1.6)
O [auth L]	PF21065	e7yf0L1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21065	ECOD (1.6)
O [auth L]	PF21066	e7yf0L3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: PF21066	ECOD (1.6)
P [auth R]	PF07925	e7yf0R4	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: PF07925	ECOD (1.6)
P [auth R]	PF07925	e7yf0R3	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: PF07925	ECOD (1.6)
P [auth R]	PF07925	e7yf0R1	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: PF07925	ECOD (1.6)
P [auth R]	PF07925	e7yf0R2	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: PF07925	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
Q [auth U]	PF07781	Reovirus minor core protein Mu-2 (Reovirus_Mu2)	Reovirus minor core protein Mu-2	-	Family
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	PF21064	Reovirus core-spike protein lambda-2 (L2), N-terminal (Reovirus_L2_N)	Reovirus core-spike protein lambda-2 (L2), N-terminal	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top [2]. This entry represents the N-terminal domain which adopts an alpha/beta topology.	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	PF21063	Reovirus core-spike protein lambda-2 (L2), GTase domain (Reovirus_L2_GTase)	Reovirus core-spike protein lambda-2 (L2), GTase domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the second one, which contains the nucleotide-binding histidine triad (HIT)-like motif from the GTase (guanylyltransferase) domain [2].	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	PF21066	Reovirus core-spike protein lambda-2 (L2), methyltransferase-2 (Reovirus_L2_MT2)	Reovirus core-spike protein lambda-2 (L2), methyltransferase-2	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the second methyltransferase domain (MT2), which catalyses the last reaction, 2'O-methylation [2].	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	PF21065	Reovirus core-spike protein lambda-2 (L2), methyltransferase-1 (Reovirus_L2_MT1)	Reovirus core-spike protein lambda-2 (L2), methyltransferase-1	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the methyltransferase-1 domain [2] which adds a methyl group to the N7 of the guanosine added by the GTase [2].	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	PF21062	Reovirus core-spike protein lambda-2 (L2), ferredoxin-like domain (Reovirus_L2_4th)	Reovirus core-spike protein lambda-2 (L2), ferredoxin-like domain	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight dom ...	Reovirus core-spike protein VP1/lambda-2 (VP1/L2) forms a pentamer that mediates enzymatic reactions in 5' capping of the viral plus-strand transcripts [1]. It forms a hollow cylinder with projecting turrets. Each VP1/L2 monomer consists of eight domains with the most N-terminal domain at the base of the turret and the most C-terminal domain at the top. This entry represents the fourth domain, which adopts a ferredoxin-like fold consisting of four beta-strands protected by alpha-helices that probably functions as a structural support for the three enzyme domains (two methyltransferase and GTase domains) [2].	Domain
P [auth R]	PF07925	Reovirus RNA-dependent RNA polymerase lambda 3 (RdRP_5)	Reovirus RNA-dependent RNA polymerase lambda 3	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth A], G [auth B], H [auth C], I [auth D], J [auth E], R [auth a], S [auth b], T [auth c], U [auth d], V [auth e]	RNA helicase	hydrolase activity catalytic activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity	cellular biosynthetic process RNA metabolic process 7-methylguanosine RNA capping RNA capping mRNA processing nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process organic substance biosynthetic process RNA processing 7-methylguanosine mRNA capping cellular metabolic process primary metabolic process gene expression cellular biosynthetic process RNA metabolic process 7-methylguanosine RNA capping RNA capping mRNA processing nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process organic substance biosynthetic process RNA processing 7-methylguanosine mRNA capping cellular metabolic process primary metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process RNA 5'-end processing metabolic process cellular process macromolecule metabolic process	viral capsid icosahedral viral capsid virion component viral inner capsid
Q [auth U]	Mu-2 protein	structural molecule activity	-	host cellular component host intracellular part host cytoskeleton host cell part host intracellular region cellular anatomical entity host intracellular organelle viral capsid virion component host cell cytoplasm
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	Lambda-2 protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding guanylyltransferase activity mRNA guanylyltransferase activity RNA guanylyltransferase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid transferase activity catalytic activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups RNA methyltransferase activity transferase activity, transferring one-carbon groups S-adenosylmethionine-dependent methyltransferase activity mRNA 5'-cap (guanine-N7-)-methyltransferase activity N-methyltransferase activity methyltransferase activity mRNA methyltransferase activity guanyl nucleotide binding GTP binding guanyl ribonucleotide binding	-	viral capsid icosahedral viral capsid virion component viral outer capsid
P [auth R]	RNA-directed RNA polymerase	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 organic cyclic compound binding nucleic acid binding	viral genome replication viral process viral life cycle	viral nucleocapsid viral capsid virion component

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth A], G [auth B], H [auth C], I [auth D], J [auth E], R [auth a], S [auth b], T [auth c], U [auth d], V [auth e]	IPR013087	Zinc finger C2H2-type	Domain
A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], A [auth 1], B [auth 2], C [auth 3], D [auth 4], E [auth 5], F [auth A], G [auth B], H [auth C], I [auth D], J [auth E], R [auth a], S [auth b], T [auth c], U [auth d], V [auth e]	IPR044949	Inner capsid protein lambda-1/ VP3	Homologous Superfamily
Q [auth U]	IPR012494	Reovirus minor core protein, Mu-2	Family
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048601	Reovirus core-spike protein lambda-2-like, GTase domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048602	Reovirus core-spike protein lambda-2-like, 7th domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048604	Reovirus core-spike protein lambda-2-like, ferredoxin-like domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048598	Reovirus core-spike protein lambda-2-like, first methyltransferase domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048596	Reovirus core-spike protein lambda-2-like, N-terminal domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048603	Reovirus core-spike protein lambda-2-like, 6th domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR010311	Reovirus core-spike lambda-2	Family
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048597	Reovirus core-spike protein lambda-2-like, second methyltransferase domain	Domain
K [auth H], L [auth I], M [auth J], N [auth K], O [auth L]	IPR048294	Reovirus core-spike protein lambda-2-like, C-terminal domain	Domain
P [auth R]	IPR007097	RNA-directed RNA polymerase, reovirus	Domain
P [auth R]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
P [auth R]	IPR012915	Reovirus RNA-dependent RNA polymerase lambda 3	Family