9CYY | pdb_00009cyy

Cryo-EM structure of MRV virion

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
P [auth W]	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8043810	3001272	SCOP2B (2022-06-29)
P [auth W]	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8043810	3001272	SCOP2B (2022-06-29)
M [auth L]	SCOP2B Superfamily	Outer capsid protein sigma 3	8033116	3001282	SCOP2B (2022-06-29)
J [auth I]	SCOP2B Superfamily	Outer capsid protein sigma 3	8033116	3001282	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	Outer capsid protein sigma 3	8033116	3001282	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)
P [auth W]	WD40	e9cyyW1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Z [auth h]	WD40	e9cyyh1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Y [auth g]	WD40	e9cyyg1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
X [auth f]	WD40	e9cyyf1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
W [auth e]	WD40	e9cyye1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
V [auth d]	WD40	e9cyyd1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
U [auth c]	WD40	e9cyyc1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
T [auth b]	WD40	e9cyyb1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
S [auth a]	WD40	e9cyya1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
R [auth Z]	WD40	e9cyyZ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Q [auth Y]	WD40	e9cyyY1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
N [auth M]	WD40	e9cyyM1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
L [auth K]	WD40	e9cyyK1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
CA [auth m]	WD40	e9cyym1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
BA [auth k]	WD40	e9cyyk1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
AA [auth i]	WD40	e9cyyi1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
K [auth J]	WD40	e9cyyJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
M [auth L]	WD40	e9cyyL1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
J [auth I]	WD40	e9cyyI1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H [auth G]	WD40	e9cyyG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
I [auth H]	WD40	e9cyyH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G [auth F]	WD40	e9cyyF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth E]	WD40	e9cyyE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth D]	WD40	e9cyyD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth B]	WD40	e9cyyB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B [auth A]	WD40	e9cyyA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth C]	WD40	e9cyyC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A [auth 0]	Trypsin	e9cyy001	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Trypsin	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
P [auth W]	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 hydrolase activity RNA binding binding nucleic acid binding nucleoside phosphate 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 hydrolase activity 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
O [auth V]	Mu2	structural molecule activity	symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated perturbation of host process symbiont-mediated suppression of host type I interferon-mediated signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host IRF9 activity symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated perturbation of host process symbiont-mediated suppression of host type I interferon-mediated signaling pathway symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host IRF9 activity symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host innate immune response	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
AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], Q [auth Y], R [auth Z], S [auth a], T [auth b], U [auth c], V [auth d], W [auth e], X [auth f], Y [auth g], Z [auth h]	Lambda 1	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 pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent 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 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
K [auth J]	Outer capsid protein lambda-2	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
H [auth G], J [auth I], M [auth L]	Outer capsid protein sigma-3	enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding enzyme regulator activity protein kinase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity protein kinase regulator activity protein serine/threonine kinase inhibitor activity kinase inhibitor activity kinase regulator activity structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding nucleic acid binding	viral process viral life cycle symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms response to stimulus response to other organism symbiont-mediated perturbation of host defenses symbiont-mediated suppression of host PKR/eIFalpha signaling symbiont-mediated response to host defenses response to external stimulus response to biotic stimulus biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway viral process viral life cycle symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms response to stimulus response to other organism symbiont-mediated perturbation of host defenses symbiont-mediated suppression of host PKR/eIFalpha signaling symbiont-mediated response to host defenses response to external stimulus response to biotic stimulus biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host process symbiont-mediated suppression of host-directed shutoff of host translation symbiont-mediated suppression of host defenses response to host response to external biotic stimulus symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle host cell cytoplasm viral capsid icosahedral viral capsid virion component viral outer capsid
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	Outer capsid protein mu-1	host cell surface binding binding	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms symbiont entry into host cell via permeabilization of host membrane viral life cycle symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism	host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part viral capsid icosahedral viral capsid virion component viral outer capsid host intracellular membrane-bounded organelle host intracellular part host cell endoplasmic reticulum host cell cytoplasm part host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part viral capsid icosahedral viral capsid virion component viral outer capsid host intracellular membrane-bounded organelle host intracellular part host cell endoplasmic reticulum host cell cytoplasm part host intracellular organelle host cell cytoplasm host intracellular region host cell mitochondrion
A [auth 0], D [auth C]	Inner capsid protein sigma-2	-	-	viral capsid icosahedral viral capsid virion component viral inner capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
P [auth W]	IPR007097	RNA-directed RNA polymerase, reovirus	Domain
P [auth W]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
P [auth W]	IPR012915	Reovirus RNA-dependent RNA polymerase lambda 3	Family
O [auth V]	IPR012494	Reovirus minor core protein, Mu-2	Family
AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], Q [auth Y], R [auth Z], S [auth a], T [auth b], U [auth c], V [auth d], W [auth e], X [auth f], Y [auth g], Z [auth h]	IPR044949	Inner capsid protein lambda-1/ VP3 superfamily	Homologous Superfamily
AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], Q [auth Y], R [auth Z], S [auth a], T [auth b], U [auth c], V [auth d], W [auth e], X [auth f], Y [auth g], Z [auth h]	IPR013087	Zinc finger C2H2-type	Domain
AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], AA [auth i], BA [auth k], CA [auth m], L [auth K], N [auth M], Q [auth Y], R [auth Z], S [auth a], T [auth b], U [auth c], V [auth d], W [auth e], X [auth f], Y [auth g], Z [auth h]	IPR054176	Inner capsid protein lambda-1/VP3	Domain
K [auth J]	IPR048601	Reovirus core-spike protein lambda-2-like, GTase domain	Domain
K [auth J]	IPR048602	Reovirus core-spike protein lambda-2-like, 7th domain	Domain
K [auth J]	IPR048604	Reovirus core-spike protein lambda-2-like, ferredoxin-like domain	Domain
K [auth J]	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
K [auth J]	IPR048598	Reovirus core-spike protein lambda-2-like, first methyltransferase domain	Domain
K [auth J]	IPR048596	Reovirus core-spike protein lambda-2-like, N-terminal domain	Domain
K [auth J]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
K [auth J]	IPR048603	Reovirus core-spike protein lambda-2-like, 6th domain	Domain
K [auth J]	IPR010311	Reovirus core-spike lambda-2	Family
K [auth J]	IPR048597	Reovirus core-spike protein lambda-2-like, second methyltransferase domain	Domain
K [auth J]	IPR048294	Reovirus core-spike protein lambda-2-like, C-terminal domain	Domain
H [auth G], J [auth I], M [auth L]	IPR000153	Reovirus, outer capsid sigma 3	Family
H [auth G], J [auth I], M [auth L]	IPR023634	Reovirus, outer capsid sigma-3 domain superfamily	Homologous Superfamily
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR015961	Mu1 membrane penetration protein, domain I	Homologous Superfamily
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR015960	Mu1 membrane penetration protein, domain IV	Homologous Superfamily
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR036256	Mu1/VP4 superfamily	Homologous Superfamily
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR009113	Outer capsid protein Mu1/VP4	Family
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR015962	Mu1 membrane penetration protein, domain II	Homologous Superfamily
B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], B [auth A], C [auth B], E [auth D], F [auth E], G [auth F], I [auth H]	IPR044937	Mu1 membrane penetration protein, domain III	Homologous Superfamily
A [auth 0], D [auth C]	IPR004317	Sigma1/sigma2, reoviral	Family

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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.