9IP2 | pdb_00009ip2

Cryo-EM structure of the RNA-dependent RNA polymerase complex from Marburg virus

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
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)
B	SCOP2B Superfamily	Ebola VP35 IID-like	8092333	3002590	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)
B		e9ip2B04	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T: C1-set	F:	ECOD (20:10:01)
A		e9ip2A02	A: ATPD N-terminal domain-like	X: N-terminal domain of the delta subunit of the F1F0-ATP synthase	H: Galactose-binding domain-like	T: C1-set	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF14318	Mononegavirales mRNA-capping region V (Mononeg_mRNAcap)	Mononegavirales mRNA-capping region V	This V domain of L RNA-polymerase carries a new motif, GxxTx(n)HR, that is essential for mRNA cap formation. Nonsegmented negative-sense (NNS) RNA viruses, Mononegavirales, cap their mRNA by an unconventional mechanism. Specifically, 5'-monophosphate ...	This V domain of L RNA-polymerase carries a new motif, GxxTx(n)HR, that is essential for mRNA cap formation. Nonsegmented negative-sense (NNS) RNA viruses, Mononegavirales, cap their mRNA by an unconventional mechanism. Specifically, 5'-monophosphate mRNA is transferred to GDP derived from GTP through a reaction that involves a covalent intermediate between the large polymerase protein L and mRNA. The V region is essential for this process [1].	Domain
A	PF00946	Mononegavirales RNA dependent RNA polymerase (Mononeg_RNA_pol)	Mononegavirales RNA dependent RNA polymerase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C, D, E	Maltose/maltodextrin-binding periplasmic protein,Polymerase cofactor VP35	-	-	viral nucleocapsid viral capsid virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
A	RNA-directed RNA polymerase L,Maltose/maltodextrin-binding periplasmic 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 RNA methyltransferase activity catalytic activity, acting on RNA transferase activity, transferring one-carbon groups catalytic activity, acting on a nucleic acid transferase activity S-adenosylmethionine-dependent methyltransferase activity mRNA 5'-cap (guanine-N7-)-methyltransferase activity N-methyltransferase activity methyltransferase activity catalytic activity mRNA methyltransferase activity RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	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 nucleic acid biosynthetic process negative stranded viral RNA replication viral genome replication biosynthetic process viral RNA genome replication viral 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 nucleic acid biosynthetic process negative stranded viral RNA replication viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process viral gene expression negative stranded viral RNA transcription viral transcription RNA-templated viral transcription	viral nucleocapsid viral capsid virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C, D, E	IPR031163	Filoviruses VP35 interferon inhibitory domain	Domain
B, C, D, E	IPR043061	Filoviruses VP35 interferon inhibitory domain, beta-sheet subdomain	Homologous Superfamily
B, C, D, E	IPR002953	Filoviridae VP35 protein	Family
B, C, D, E	IPR043060	Filoviruses VP35 interferon inhibitory domain, helical subdomain	Homologous Superfamily
A	IPR014023	Mononegavirales RNA-directed RNA polymerase catalytic domain	Domain
A	IPR025786	Mononegavirus L protein 2-O-ribose methyltransferase	Domain
A	IPR026890	Mononegavirales mRNA-capping domain V	Domain
A	IPR039736	RNA-directed RNA polymerase L, C-terminal	Domain
A	IPR017235	RNA-directed RNA polymerase L, filovirus	Family

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.