5D0B

Crystal structure of epoxyqueuosine reductase with a tRNA-TYR epoxyqueuosine-modified tRNA stem loop

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	FMN-dependent nitroreductase-like	8092574	3001947	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ARM repeat-like	8092576	3000116	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ARM repeat-like	8092576	3000116	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FMN-dependent nitroreductase-like	8092574	3001947	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	PF13646	e5d0bA3	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF13646	ECOD (1.6)
A	PF13484	e5d0bA2	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: PF13484	ECOD (1.6)
A	PF08331	e5d0bA1	A: a+b two layers	X: Alpha-beta plaits	H: FMN-dependent nitroreductase-like (From Topology)	T: FMN-dependent nitroreductase-like	F: PF08331	ECOD (1.6)
B	F_UNCLASSIFIED	e5d0bB2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: F_UNCLASSIFIED	ECOD (1.6)
B	PF08331,PF13484	e5d0bB1	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: PF08331,PF13484	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08331	Epoxyqueuosine reductase QueG, DUF1730 (QueG_DUF1730)	Epoxyqueuosine reductase QueG, DUF1730	-	Family
A, B	PF03130	PBS lyase HEAT-like repeat (HEAT_PBS)	PBS lyase HEAT-like repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Epoxyqueuosine reductase	epoxyqueuosine reductase activity oxidoreductase activity catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	glycosyl compound metabolic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process nucleoside biosynthetic process queuosine metabolic process nucleobase-containing compound metabolic process queuosine biosynthetic process organic substance metabolic process nucleobase-containing small molecule metabolic process organic substance biosynthetic process small molecule metabolic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process glycosyl compound biosynthetic process glycosyl compound metabolic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process nucleoside biosynthetic process queuosine metabolic process nucleobase-containing compound metabolic process queuosine biosynthetic process organic substance metabolic process nucleobase-containing small molecule metabolic process organic substance biosynthetic process small molecule metabolic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process glycosyl compound biosynthetic process small molecule biosynthetic process primary metabolic process ribonucleoside biosynthetic process nucleobase-containing compound biosynthetic process nucleoside metabolic process nucleobase-containing small molecule biosynthetic process organic cyclic compound metabolic process biosynthetic process organic cyclic compound biosynthetic process metabolic process ribonucleoside metabolic process cellular biosynthetic process cellular metabolic process RNA metabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process tRNA processing ncRNA metabolic process nucleic acid catabolic process cellular process macromolecule metabolic process RNA processing	intracellular anatomical structure cytoplasm cellular anatomical entity
C [auth F]	RNA (5'-D(GPCPAPGPAPCPUP(56B)PUPAPAPAPUPCPUPGP*C)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR004453	Epoxyqueuosine reductase QueG	Family
A, B	IPR016024	Armadillo-type fold	Homologous Superfamily
A, B	IPR004155	PBS lyase HEAT-like repeat	Repeat
A, B	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
A, B	IPR011989	Armadillo-like helical	Homologous Superfamily
A, B	IPR013542	Epoxyqueuosine reductase QueG, DUF1730	Domain
A, B	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding 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.