7YED | pdb_00007yed

In situ structure of polymerase complex of mammalian reovirus in the elongation state

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
R	F_UNCLASSIFIED	e7yedR1	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: F_UNCLASSIFIED	ECOD (1.6)
R	F_UNCLASSIFIED	e7yedR2	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: F_UNCLASSIFIED	ECOD (1.6)
R	F_UNCLASSIFIED	e7yedR3	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: F_UNCLASSIFIED	ECOD (1.6)
R	F_UNCLASSIFIED	e7yedR4	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: F_UNCLASSIFIED	ECOD (1.6)
O [auth L]	F_UNCLASSIFIED	e7yedL7	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
O [auth L]	F_UNCLASSIFIED	e7yedL4	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: F_UNCLASSIFIED	ECOD (1.6)
O [auth L]	F_UNCLASSIFIED	e7yedL1	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: F_UNCLASSIFIED	ECOD (1.6)
O [auth L]	F_UNCLASSIFIED	e7yedL6	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: F_UNCLASSIFIED	ECOD (1.6)
O [auth L]	F_UNCLASSIFIED	e7yedL5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: F_UNCLASSIFIED	ECOD (1.6)
N [auth K]	F_UNCLASSIFIED	e7yedK6	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
N [auth K]	F_UNCLASSIFIED	e7yedK3	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: F_UNCLASSIFIED	ECOD (1.6)
N [auth K]	F_UNCLASSIFIED	e7yedK7	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: F_UNCLASSIFIED	ECOD (1.6)
N [auth K]	F_UNCLASSIFIED	e7yedK1	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: F_UNCLASSIFIED	ECOD (1.6)
N [auth K]	F_UNCLASSIFIED	e7yedK4	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: F_UNCLASSIFIED	ECOD (1.6)
M [auth J]	F_UNCLASSIFIED	e7yedJ8	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
M [auth J]	F_UNCLASSIFIED	e7yedJ7	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: F_UNCLASSIFIED	ECOD (1.6)
M [auth J]	F_UNCLASSIFIED	e7yedJ4	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: F_UNCLASSIFIED	ECOD (1.6)
M [auth J]	F_UNCLASSIFIED	e7yedJ3	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: F_UNCLASSIFIED	ECOD (1.6)
M [auth J]	F_UNCLASSIFIED	e7yedJ5	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: F_UNCLASSIFIED	ECOD (1.6)
L [auth I]	F_UNCLASSIFIED	e7yedI3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
L [auth I]	F_UNCLASSIFIED	e7yedI7	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: F_UNCLASSIFIED	ECOD (1.6)
L [auth I]	F_UNCLASSIFIED	e7yedI6	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: F_UNCLASSIFIED	ECOD (1.6)
L [auth I]	F_UNCLASSIFIED	e7yedI4	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: F_UNCLASSIFIED	ECOD (1.6)
L [auth I]	F_UNCLASSIFIED	e7yedI8	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: F_UNCLASSIFIED	ECOD (1.6)
K [auth H]	F_UNCLASSIFIED	e7yedH6	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
K [auth H]	F_UNCLASSIFIED	e7yedH7	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: F_UNCLASSIFIED	ECOD (1.6)
K [auth H]	F_UNCLASSIFIED	e7yedH3	A: a+b three layers	X: HIT-like	H: HIT-related (From Topology)	T: HIT-related	F: F_UNCLASSIFIED	ECOD (1.6)
K [auth H]	F_UNCLASSIFIED	e7yedH1	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: F_UNCLASSIFIED	ECOD (1.6)
K [auth H]	F_UNCLASSIFIED	e7yedH4	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: F_UNCLASSIFIED	ECOD (1.6)
I [auth D]	F_UNCLASSIFIED	e7yedD1	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: F_UNCLASSIFIED	ECOD (1.6)
F [auth A]	F_UNCLASSIFIED	e7yedA1	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: F_UNCLASSIFIED	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
T [auth U]	Mu-2 protein	structural molecule activity	-	host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle viral capsid virion component
S [auth T]	RNA (36-MER)	-	-	-
R	RNA-directed RNA polymerase	RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase 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	viral genome replication viral process viral life cycle	viral nucleocapsid viral capsid virion component
Q [auth N]	RNA (36-MER)	-	-	-
P [auth M]	RNA (5'-R(PUPUPUPAPAPAPAPAPUPUPUPUPAPAPAPAPUPAPAPUP*U)-3')	-	-	-
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 anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide 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
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], U [auth a], V [auth b], W [auth c], X [auth d], Y [auth e]	RNA helicase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity catalytic activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid helicase activity RNA helicase activity ATP-dependent activity, acting on RNA macromolecular conformation isomerase activity ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding	7-methylguanosine mRNA capping RNA metabolic process primary metabolic process 7-methylguanosine RNA capping RNA capping gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process 7-methylguanosine mRNA capping RNA metabolic process primary metabolic process 7-methylguanosine RNA capping RNA capping gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process mRNA processing mRNA metabolic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process RNA 5'-end processing metabolic process cellular process RNA processing macromolecule metabolic process	viral capsid icosahedral viral capsid virion component viral inner capsid T=2 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
T [auth U]	IPR012494	Reovirus minor core protein, Mu-2	Family
R	IPR007097	RNA-directed RNA polymerase, reovirus	Domain
R	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
R	IPR012915	Reovirus RNA-dependent RNA polymerase lambda 3	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
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], U [auth a], V [auth b], W [auth c], X [auth d], Y [auth e]	IPR044949	Inner capsid protein lambda-1/ VP3 superfamily	Homologous Superfamily
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], U [auth a], V [auth b], W [auth c], X [auth d], Y [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], U [auth a], V [auth b], W [auth c], X [auth d], Y [auth e]	IPR054176	Inner capsid protein lambda-1/VP3	Domain