5AMQ

Structure of the La Crosse Bunyavirus polymerase in complex with the 3' and 5' viral RNA

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)
A	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8090962	3001272	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Restriction endonuclease-like	8090963	3000104	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)
A	Bunya_RdRp_2nd	e5amqA2	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: Bunya_RdRp_2nd	ECOD (1.6)
A	Bunya_RdRp_1st	e5amqA5	A: a+b complex topology	X: Polymerase acidic protein (From Topology)	H: Polymerase acidic protein (From Topology)	T: Polymerase acidic protein	F: Bunya_RdRp_1st	ECOD (1.6)
A	EUF08583	e5amqA3	A: a+b complex topology	X: Middle domain in PB2 (From Topology)	H: Middle domain in PB2 (From Topology)	T: Middle domain in PB2	F: EUF08583	ECOD (1.6)
A	L_protein_N	e5amqA4	A: a/b three-layered sandwiches	X: Restriction endonuclease-like	H: Restriction endonuclease-like (From Topology)	T: Restriction endonuclease-like	F: L_protein_N	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF15518	L protein N-terminus (L_protein_N)	L protein N-terminus	This endonuclease domain is found at the N-terminus of many bunyavirus L proteins [1].	Domain
A	PF21561	Virus, RNA-directed RNA polymerase L, thumb ring domain (L_thumb_ring_vir)	Virus, RNA-directed RNA polymerase L, thumb ring domain	This domain is found in RNA-directed RNA polymerase L from Bunyavirus La Crosse (L) and similar viral sequences. This entry represents the thumb ring domain, which shows an alpha-beta structure that is structurally homologous to the influenza PB2 N1 ...	This domain is found in RNA-directed RNA polymerase L from Bunyavirus La Crosse (L) and similar viral sequences. This entry represents the thumb ring domain, which shows an alpha-beta structure that is structurally homologous to the influenza PB2 N1 and N2 domains [1,2].	Domain
A	PF04196	Bunyavirus RNA dependent RNA polymerase (Bunya_RdRp)	Bunyavirus RNA dependent RNA polymerase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RNA POLYMERASE L	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 binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound 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 binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding hydrolase activity RNA binding nucleic acid binding cation binding ion 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	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region cellular anatomical entity host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum host cell Golgi apparatus virion component
B	RNA	-	-	-
C	RNA	-	-	-
D [auth c]	RNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR014384	RNA-directed RNA polymerase, orthobunyavirus	Family
A	IPR007099	RNA-directed RNA polymerase, negative-strand RNA virus	Domain
A	IPR029124	RNA-directed RNA polymerase L, N-terminal	Domain
A	IPR048547	RNA-directed RNA polymerase L, thumb ring domain, bunyaviral	Domain
A	IPR007322	RNA-dependent RNA polymerase, bunyaviral	Domain
A	IPR048006	RNA endonuclease, cap-snatching, bunyaviral	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.