2QJ1 | pdb_00002qj1

Crystal structure of infectious bursal disease virus VP1 polymerase incubated with an oligopeptide mimicking the VP3 C-terminus

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	8035626	3001272	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotide cyclase/DNA polymerase palm domain-like	8035626	3001272	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	Birna_RdRp_2nd	e2qj1A1	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: Birna_RdRp_2nd	ECOD (1.6)
A	Birna_RdRp_3rd	e2qj1A2	A: alpha complex topology	X: Sigma2 domain-like	H: C-terminal bundle domain in birnaviruse RNA-dependent RNA polymerase (From Topology)	T: C-terminal bundle domain in birnaviruse RNA-dependent RNA polymerase	F: Birna_RdRp_3rd	ECOD (1.6)
A	Birna_RdRp_1st	e2qj1A3	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: 'palm' domain in birnaviruse RNA-dependent RNA polymerase	F: Birna_RdRp_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.1730.10	Alpha Beta	Alpha-Beta Complex	Infectious bursal virus vp1 polymerase fold	Infectious bursal virus vp1 polymerase domain	CATH (4.3.0)
A	1.10.287.540	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
A	6.10.140.300	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
A	1.10.1740.80	Mainly Alpha	Orthogonal Bundle	Rna Polymerase Sigma Factor	Chain: A	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Infectious bursal disease virus VP1 polymerase	RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups 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	viral genome replication viral process viral life cycle	virion component

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR046750	RNA-directed RNA polymerase, C-terminal, birnavirus	Domain
A	IPR046812	RNA-directed RNA polymerase, palm domain superfamily, Birnavirus	Homologous Superfamily
A	IPR007100	Birnavirus RNA-directed RNA polymerase, palm domain	Domain
A	IPR046752	RNA-directed RNA polymerase, thumb domain, birnavirus	Domain
A	IPR046813	RNA-directed RNA polymerase, thumb domain superfamily, Birnavirus	Homologous Superfamily
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR046814	RNA-directed RNA polymerase, C-terminal domain superfamily, Avibirnavirus	Homologous Superfamily

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.