1JKE | pdb_00001jke

D-Tyr tRNATyr deacylase from Escherichia coli

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d1jked_	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	D-Tyr tRNAtyr deacylase, DTD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1jkec_	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	D-Tyr tRNAtyr deacylase, DTD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1jkeb_	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	D-Tyr tRNAtyr deacylase, DTD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1jkea_	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	D-Tyr tRNAtyr deacylase, DTD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	DTD-like	8037081	3000522	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DTD-like	8037081	3000522	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DTD-like	8037081	3000522	SCOP2B (2022-06-29)
A	SCOP2 Family	DTD-like	8024702	4003261	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DTD-like	8037081	3000522	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Glyco_hydro_20b	e1jkeD1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
C	Glyco_hydro_20b	e1jkeC1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
B	Glyco_hydro_20b	e1jkeB1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Glyco_hydro_20b	ECOD (v294.1)
A	Tyr_Deacylase	e1jkeA1	A: a/b three-layered sandwiches	X: DTD-like	H: DTD-like (Pfam 02580)	T: DTD-like (Pfam 02580)	F: Tyr_Deacylase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase	Chain: A	CATH (4.3.0)
C	3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase	Chain: A	CATH (4.3.0)
B	3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase	Chain: A	CATH (4.3.0)
A	3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02580	D-Tyr-tRNA(Tyr) deacylase (Tyr_Deacylase)	D-Tyr-tRNA(Tyr) deacylase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	D-Tyr-tRNATyr deacylase	Gly-tRNA(Ala) deacylase activity aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity identical protein binding protein binding binding protein homodimerization activity Gly-tRNA(Ala) deacylase activity aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid deacylase activity carboxylic ester hydrolase activity hydrolase activity catalytic activity, acting on a tRNA catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity Ser(Gly)-tRNA(Ala) hydrolase activity D-aminoacyl-tRNA deacylase activity D-tyrosyl-tRNA(Tyr) deacylase activity RNA binding tRNA binding nucleic acid binding	catabolic process oxoacid metabolic process non-proteinogenic amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process alpha-amino acid catabolic process carboxylic acid catabolic process D-amino acid metabolic process metabolic process catabolic process oxoacid metabolic process non-proteinogenic amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process alpha-amino acid catabolic process carboxylic acid catabolic process D-amino acid metabolic process metabolic process cellular process small molecule metabolic process small molecule catabolic process D-amino acid catabolic process amino acid catabolic process tRNA metabolic process nucleobase-containing compound metabolic process RNA metabolic process macromolecule metabolic process nucleic acid metabolic process biological regulation aminoacyl-tRNA metabolism involved in translational fidelity regulation of biological quality regulation of translational fidelity response to stimulus response to stress response to heat response to abiotic stimulus response to temperature stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR003732	D-aminoacyl-tRNA deacylase DTD	Family
A, B, C, D	IPR023509	D-aminoacyl-tRNA deacylase-like superfamily	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.