8Z9H

Cryo-EM structure of Thogoto virus polymerase in a transcription elongation-reception conformation

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, H	PF00603	Influenza RNA-dependent RNA polymerase subunit PA (Flu_PA)	Influenza RNA-dependent RNA polymerase subunit PA	-	Family
B, I	PF00602	Influenza RNA-dependent RNA polymerase subunit PB1 (Flu_PB1)	Influenza RNA-dependent RNA polymerase subunit PB1	-	Family
C, J	PF21442	Polymerase basic protein 2 (PB2), '627' domain (PB2_627-dom)	Polymerase basic protein 2 (PB2), '627' domain	PB2 is a subunit of the RNA-dependent RNA polymerase which is responsible for replication and transcription of virus RNA segments. This entry represents the so-called '627 domain', named because it contains the host specificity residue 627 which is ...	PB2 is a subunit of the RNA-dependent RNA polymerase which is responsible for replication and transcription of virus RNA segments. This entry represents the so-called '627 domain', named because it contains the host specificity residue 627 which is a lysine in human Influenza A virus and a glutamate in avian strains [1]. It contains a large positively charged region, consistent with its ability to bind RNA.	Domain
C, J	PF21490	Polymerase basic protein 2, cap-binding domain (PB2_cap-binding)	Polymerase basic protein 2, cap-binding domain	Polymerase basic protein 2 (PB2) is a subunit of the RNA-dependent RNA polymerase of Orthomyxovirus Influenza A virus (IAV) which performs transcription of viral mRNAs by cap-snatching, a processes that generated capped primers by host pre-mRNA bindi ...	Polymerase basic protein 2 (PB2) is a subunit of the RNA-dependent RNA polymerase of Orthomyxovirus Influenza A virus (IAV) which performs transcription of viral mRNAs by cap-snatching, a processes that generated capped primers by host pre-mRNA binding, mediated by PB2 [1]. This protein has two domains, the cap-binding and the so-called '627-domain'. This entry represents the cap-binding domain and includes PB2 from Thogoto (THOV) virus, which is similar to IAV [1].	Domain
C, J	PF20950	Influenza RNA polymerase PB2 helical domain (Flu_PB2_4th)	Influenza RNA polymerase PB2 helical domain	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase ...	Influenza virus encodes a large, multidomain RNA-dependent RNA polymerase that can both transcribe and replicate the viral RNA genome. In influenza virus, the polymerase is composed of three polypeptides: PB1, PB2 and PA/P3. PB1 houses the polymerase active site, whereas PB2 and PA/P3 contain, respectively, cap-binding [1] and endonuclease domains required for transcription initiation by cap-snatching [2]. This entry represents the helical domain of Flu PB2 protein.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, H	Polymerase acidic protein	RNA binding binding organic cyclic compound binding nucleic acid 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 nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral 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 nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle virion component
B, I	RNA-directed RNA polymerase catalytic subunit	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 binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding 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 binding binding organic cyclic compound binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule 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 nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral 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 nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process	-
C, J	Polymerase basic protein 2	-	7-methylguanosine mRNA capping cellular biosynthetic process cellular metabolic process 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 7-methylguanosine mRNA capping cellular biosynthetic process cellular metabolic process 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 gene expression cap snatching negative stranded viral RNA transcription viral process viral transcription RNA-templated viral transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle virion component
D	RNA (5'-R(APGPAPGPAPAPAPUPCPAPAPGPGPCPAPGPUPU)-3')	-	-	-
E, F	RNA (5'-R(GPAPCPUPGPCPCPUPGPUPUPUPUPUPGPCP*U)-3')	-	-	-
G, K	RNA (5'-R(PGPCPAPAPAPAPAPCP*A)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, H	IPR001009	Influenza RNA-dependent RNA polymerase subunit PA	Family
A, H	IPR038372	Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain	Homologous Superfamily
B, I	IPR007099	RNA-directed RNA polymerase, negative-strand RNA virus	Domain
B, I	IPR001407	Influenza RNA-dependent RNA polymerase subunit PB1	Family
B, I	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
C, J	IPR049113	Polymerase basic protein 2, helical domain	Domain
C, J	IPR048838	Polymerase basic protein 2, '627' domain	Domain
C, J	IPR048837	Polymerase basic protein 2, cap-binding domain	Domain

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 R01GM133198.