5B63 | pdb_00005b63

Crystal structures of E.coli arginyl-tRNA synthetase (ArgRS) in complex with substrate tRNA(Arg)

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	PrpF	e5b63C1	A: a/b three-layered sandwiches	X: Beta domain of coronavirus spike glycoprotein	H: Diaminopimelate epimerase-like	T: Diaminopimelate epimerase-like	F: PrpF	ECOD (v294.1)
C	HH_signal	e5b63C2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: beta-helix of amnionless (AMN) extracellular domain	T: beta-helix of amnionless (AMN) extracellular domain	F: HH_signal	ECOD (v294.1)
A	PrpF	e5b63A3	A: a/b three-layered sandwiches	X: Beta domain of coronavirus spike glycoprotein	H: Diaminopimelate epimerase-like	T: Diaminopimelate epimerase-like	F: PrpF	ECOD (v294.1)
A	HH_signal	e5b63A2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: beta-helix of amnionless (AMN) extracellular domain	T: beta-helix of amnionless (AMN) extracellular domain	F: HH_signal	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (utative)
A	3.30.1360.70	Alpha Beta	2-Layer Sandwich	Gyrase A	domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF03485	Arginyl tRNA synthetase N terminal domain (Arg_tRNA_synt_N)	Arginyl tRNA synthetase N terminal domain	This domain is found at the amino terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [1].	Domain
A, C	PF00750	tRNA synthetases class I (R), catalytic domain (tRNA-synt_1d)	tRNA synthetases class I (R), catalytic domain	Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only arginyl tRNA synthetase.	Domain
A, C	PF05746	DALR anticodon binding domain (DALR_1)	DALR anticodon binding domain	This all alpha helical domain is the anticodon binding domain in Arginyl and glycyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	tRNA-Arg	-	-	-
A, C	Arginine--tRNA ligase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ligase activity, forming carbon-oxygen bonds aminoacyl-tRNA ligase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a tRNA arginine-tRNA ligase activity catalytic activity ligase activity	amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process arginyl-tRNA aminoacylation nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process amino acid activation tRNA aminoacylation RNA metabolic process primary metabolic process amino acid metabolic process translation gene expression tRNA aminoacylation for protein translation protein biosynthetic process macromolecule biosynthetic process arginyl-tRNA aminoacylation nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process biosynthetic process metabolic process cellular process macromolecule metabolic process protein metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR036695	Arginyl tRNA synthetase N-terminal domain superfamily	Homologous Superfamily
A, C	IPR005148	Arginyl tRNA synthetase N-terminal domain	Domain
A, C	IPR001412	Aminoacyl-tRNA synthetase, class I, conserved site	Conserved Site
A, C	IPR009080	Aminoacyl-tRNA synthetase, class Ia, anticodon-binding	Homologous Superfamily
A, C	IPR035684	Arginyl-tRNA synthetase, catalytic core domain	Domain
A, C	IPR001278	Arginine-tRNA ligase	Family
A, C	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	Homologous Superfamily
A, C	IPR008909	DALR anticodon binding	Domain

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.