Annotations: 6JIM

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	UNK_F_TYPE	e6jimA1	A: a+b complex topology	X: Tomato mosaic virus helicase N-terminal domain (From Topology)	H: Tomato mosaic virus helicase N-terminal domain (From Topology)	T: Tomato mosaic virus helicase N-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
A	Viral_helicase1	e6jimA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (1.6)
A	UNK_F_TYPE	e6jimA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UNK_F_TYPE	ECOD (1.6)
B	UNK_F_TYPE	e6jimB3	A: a+b complex topology	X: Tomato mosaic virus helicase N-terminal domain (From Topology)	H: Tomato mosaic virus helicase N-terminal domain (From Topology)	T: Tomato mosaic virus helicase N-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
B	Viral_helicase1	e6jimB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Viral_helicase1	ECOD (1.6)
B	UNK_F_TYPE	e6jimB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: UNK_F_TYPE	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01707	Peptidase family C9 (Peptidase_C9)	Peptidase family C9	-	Family
A, B	PF20896	Tomato mosaic virus helicase, N-terminal domain (ToMV_Hel_N)	Tomato mosaic virus helicase, N-terminal domain	Tomato mosaic virus (ToMV) generates two large replication proteins in the host cell. The smaller one contains the methyltransferase domain and the helicase domain (Hel). This core helicase domain consists of two RecA domains and an N-terminal access ...	Tomato mosaic virus (ToMV) generates two large replication proteins in the host cell. The smaller one contains the methyltransferase domain and the helicase domain (Hel). This core helicase domain consists of two RecA domains and an N-terminal accessory domain (this entry) containing a flexible loop, a long alpha-helix and an antiparallel, six-stranded beta-sheet. This N-terminal domain plays a role in the binding of the host factors TOM1 and ARL8 required for viral replication [1,2]. It is also found in proteins from related virus.	Domain
A, B	PF01443	Viral (Superfamily 1) RNA helicase (Viral_helicase1)	Viral (Superfamily 1) RNA helicase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	helicase	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 methyltransferase activity transferase activity, transferring one-carbon groups methyltransferase activity S-adenosylmethionine-dependent methyltransferase activity mRNA methyltransferase activity 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 methyltransferase activity transferase activity, transferring one-carbon groups methyltransferase activity S-adenosylmethionine-dependent methyltransferase activity mRNA methyltransferase activity cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity RNA binding binding organic cyclic compound binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding adenyl ribonucleotide binding adenyl nucleotide binding ATP binding phosphoric ester hydrolase activity hydrolase activity, acting on ester bonds polynucleotide 5'-phosphatase activity phosphatase activity pyrophosphatase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides poly(A) RNA polymerase activity adenylyltransferase activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity cation binding metal ion binding	cellular biosynthetic process cellular metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process viral genome replication biosynthetic process cellular biosynthetic process cellular metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process viral genome replication biosynthetic process viral RNA genome replication organic cyclic compound biosynthetic process viral process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process gene expression DNA-templated transcription symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated suppression of host transcription symbiont-mediated suppression of host gene expression symbiont-mediated suppression of host mRNA transcription via inhibition of RNA polymerase II activity modulation by symbiont of host process symbiont-mediated perturbation of host gene expression symbiont-mediated perturbation of host transcription modulation of process of another organism 7-methylguanosine RNA capping RNA capping mRNA processing RNA processing 7-methylguanosine mRNA capping mRNA metabolic process RNA 5'-end processing organonitrogen compound metabolic process proteolysis protein metabolic process	cell periphery plasma membrane membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle cell periphery plasma membrane membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasmic vesicle membrane host cell cytoplasm part host intracellular organelle host cell cytoplasmic vesicle host cell cytoplasm host intracellular region membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane host cell filopodium host cell projection host cell nucleus
C, D	RNA (5'-R(PUPUPUPUP*UP)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR047311	RNA-dependent RNA polymerase, togavirus	Domain
A, B	IPR048891	Non-structural protein 3, zinc-binding domain	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR002589	Macro domain	Domain
A, B	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B	IPR002620	Alphavirus nsp2 protease domain	Domain
A, B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B	IPR001788	RNA-dependent RNA polymerase, alsuviricetes	Domain
A, B	IPR002588	Alphavirus-like methyltransferase domain	Domain
A, B	IPR043472	Macro domain-like	Homologous Superfamily
A, B	IPR044936	Alphavirus nsP2 protease domain superfamily	Homologous Superfamily
A, B	IPR049329	Tomato mosaic virus helicase, N-terminal domain	Domain
A, B	IPR044371	Non-structural protein 3, X-domain-like	Domain
A, B	IPR027351	(+) RNA virus helicase core domain	Domain
A, B	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.