2DXA | pdb_00002dxa

Crystal structure of trans editing enzyme ProX from E.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)
A	d2dxaa_	Alpha and beta proteins (a+b)	YbaK/ProRS associated domain	YbaK/ProRS associated domain	automated matches	automated matches	(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)
A	SCOP2 Family	ProX-like	8081267	4001899	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ProX-like	8081268	3000535	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)
A	Cyt-b5	e2dxaA1	A: alpha bundles	X: Profilin-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Cyt-b5	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.960.10	Alpha Beta	Alpha-Beta Complex	YbaK protein	YbaK/aminoacyl-tRNA synthetase-associated domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF04073	Aminoacyl-tRNA editing domain (tRNA_edit)	Aminoacyl-tRNA editing domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Protein ybaK	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 lyase activity Cys-tRNA(Pro) deacylase activity	biological regulation RNA metabolic process primary metabolic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process aminoacyl-tRNA metabolism involved in translational fidelity metabolic process cellular process regulation of biological quality macromolecule metabolic process regulation of translational fidelity biosynthetic process protein metabolic process biological regulation RNA metabolic process primary metabolic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process aminoacyl-tRNA metabolism involved in translational fidelity metabolic process cellular process regulation of biological quality macromolecule metabolic process regulation of translational fidelity biosynthetic process protein metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process response to X-ray response to ionizing radiation response to stimulus response to radiation response to abiotic stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR007214	YbaK/aminoacyl-tRNA synthetase-associated domain	Domain
A	IPR004369	Prolyl-tRNA editing protein, YbaK/EbsC	Family
A	IPR036754	YbaK/aminoacyl-tRNA synthetase-associated domain 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.