1TC5 | pdb_00001tc5

Structural Analysis of a probable eukaryotic D-amino acid tRNA deacylase

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)
A	d1tc5a1	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	probable eukaryotic D-amino acid tRNA deacylase	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
A	d1tc5a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
B	d1tc5b1	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	probable eukaryotic D-amino acid tRNA deacylase	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
B	d1tc5b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
C	d1tc5c1	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	probable eukaryotic D-amino acid tRNA deacylase	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
C	d1tc5c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
D	d1tc5d1	Alpha and beta proteins (a/b)	DTD-like	DTD-like	DTD-like	probable eukaryotic D-amino acid tRNA deacylase	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)
D	d1tc5d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Leishmania major ) [TaxId: 5664 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	DTD-like	8027739	4003261	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DTD-like	8040118	3000522	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	DTD-like	8040118	3000522	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DTD-like	8040118	3000522	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DTD-like	8040118	3000522	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	Tyr_Deacylase	e1tc5A1	A: a/b three-layered sandwiches	X: DTD-like	H: DTD-like (Pfam 02580) (From Topology)	T: DTD-like (Pfam 02580)	F: Tyr_Deacylase	ECOD (1.6)
B	Tyr_Deacylase	e1tc5B1	A: a/b three-layered sandwiches	X: DTD-like	H: DTD-like (Pfam 02580) (From Topology)	T: DTD-like (Pfam 02580)	F: Tyr_Deacylase	ECOD (1.6)
C	Tyr_Deacylase	e1tc5C1	A: a/b three-layered sandwiches	X: DTD-like	H: DTD-like (Pfam 02580) (From Topology)	T: DTD-like (Pfam 02580)	F: Tyr_Deacylase	ECOD (1.6)
D	Tyr_Deacylase	e1tc5D1	A: a/b three-layered sandwiches	X: DTD-like	H: DTD-like (Pfam 02580) (From Topology)	T: DTD-like (Pfam 02580)	F: Tyr_Deacylase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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)
C	3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase	Chain: A	CATH (4.3.0)
D	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	Probable eukaryotic D-amino acid tRNA deacylase, LMAJ005534AAA	aminoacyl-tRNA deacylase activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid D-aminoacyl-tRNA deacylase activity deacylase activity carboxylic ester hydrolase activity catalytic activity, acting on a tRNA hydrolase activity catalytic activity	-	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.