3K1Q | pdb_00003k1q

Backbone model of an aquareovirus virion by cryo-electron microscopy and bioinformatics

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)
X	Toxin_3	e3k1qX1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
W	Toxin_3	e3k1qW1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
V	Toxin_3	e3k1qV1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
U	Toxin_3	e3k1qU1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
Q	Toxin_3	e3k1qQ1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
P	Toxin_3	e3k1qP1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
O	Toxin_3	e3k1qO1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
K	Toxin_3	e3k1qK1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
J	Toxin_3	e3k1qJ1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
I	Toxin_3	e3k1qI1	A: alpha arrays	X: DEATH domain	H: omega toxin-related	T: Scorpion toxin-like	F: Toxin_3	ECOD (v295.2)
Y	Tachylectin	e3k1qY1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
T	Tachylectin	e3k1qT1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
S	Tachylectin	e3k1qS1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
R	Tachylectin	e3k1qR1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
N	Tachylectin	e3k1qN1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
M	Tachylectin	e3k1qM1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
L	Tachylectin	e3k1qL1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
H	Tachylectin	e3k1qH1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
G	Tachylectin	e3k1qG1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
F	Capsid_VP7	e3k1qF1	A: alpha arrays	X: Outer capsid protein sigma 3-related	H: Outer capsid protein sigma 3-related	T: Outer capsid protein sigma 3-related	F: Capsid_VP7	ECOD (v295.2)
E	Tachylectin	e3k1qE1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
D	Tachylectin	e3k1qD1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Tachylectin	ECOD (v295.2)
C	zf-C2H2_6	e3k1qC2	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: zf-C2H2_6	ECOD (v295.2)
C	Lamba1_VP3	e3k1qC1	A: alpha arrays	X: Scaffolding protein GPB	H: gp11/gp12 receptor-binding domain	T: gp11/gp12 receptor-binding domain	F: Lamba1_VP3	ECOD (v295.2)
B	Lamba1_VP3	e3k1qB2	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: Lamba1_VP3	ECOD (v295.2)
A	VEGFR-1-like_Ig-like	e3k1qA9	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: VEGFR-1-like_Ig-like	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	Outer capsid VP5	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	viral capsid icosahedral viral capsid virion component viral outer capsid
F, G, H, L, M F, G, H, L, M, N, R, S, T, Y	Outer capsid VP7	-	-	-
D, E	Core protein VP6	-	-	viral capsid virion component
C	VP3B	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
B	VP3A	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
A	VP1	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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	IPR015960	Mu1 membrane penetration protein, domain IV	Homologous Superfamily
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	IPR036256	Mu1/VP4 superfamily	Homologous Superfamily
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	IPR009113	Outer capsid protein Mu1/VP4	Family
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	IPR015962	Mu1 membrane penetration protein, domain II	Homologous Superfamily
I, J, K, O, P I, J, K, O, P, Q, U, V, W, X	IPR044937	Mu1 membrane penetration protein, domain III	Homologous Superfamily
F, G, H, L, M F, G, H, L, M, N, R, S, T, Y	IPR031413	Outer capsid protein VP7	Family
D, E	IPR004317	Sigma1/sigma2, reoviral	Family
C	IPR044949	Inner capsid protein lambda-1/ VP3 superfamily	Homologous Superfamily
C	IPR013087	Zinc finger C2H2-type	Domain
C	IPR054176	Inner capsid protein lambda-1/VP3	Domain
B	IPR044949	Inner capsid protein lambda-1/ VP3 superfamily	Homologous Superfamily
B	IPR013087	Zinc finger C2H2-type	Domain
B	IPR054176	Inner capsid protein lambda-1/VP3	Domain
A	IPR048601	Reovirus core-spike protein lambda-2-like, GTase domain	Domain
A	IPR048602	Reovirus core-spike protein lambda-2-like, 7th domain	Domain
A	IPR048604	Reovirus core-spike protein lambda-2-like, ferredoxin-like domain	Domain
A	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A	IPR048598	Reovirus core-spike protein lambda-2-like, first methyltransferase domain	Domain
A	IPR048596	Reovirus core-spike protein lambda-2-like, N-terminal domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR048603	Reovirus core-spike protein lambda-2-like, 6th domain	Domain
A	IPR010311	Reovirus core-spike lambda-2	Family
A	IPR048597	Reovirus core-spike protein lambda-2-like, second methyltransferase domain	Domain
A	IPR048294	Reovirus core-spike protein lambda-2-like, C-terminal domain	Domain

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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.