› 1q11

X-ray diffraction
1.6Å resolution

Crystal structure of an active fragment of human tyrosyl-tRNA synthetase with tyrosinol

Released:
DOI: 10.2210/pdb1q11/pdb
PDB entry 1q11 coloured by chain, front view.
PDB entry 1q11 coloured by chain, side view.
PDB entry 1q11 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures that suggest late development of genetic code components for differentiating aromatic side chains.
Yang XL, Otero FJ, Skene RJ, McRee DE, Schimmel P, Ribas de Pouplana L
Proc Natl Acad Sci U S A 100 15376-80 (2003)
PMID: 14671330

Function and Biology Details

Reaction catalysed: 
ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + L-tyrosyl-tRNA(Tyr)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-157047 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tyrosine--tRNA ligase, cytoplasmic, N-terminally processed Chain: A
Molecule details ›
Chain: A
Length: 372 amino acids
Theoretical weight: 42.13 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P54577 (Residues: 1-364; Coverage: 69%)
Gene names: YARS, YARS1
Sequence domains: tRNA synthetases class I (W and Y)
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand PO4 1 x PO4
Ligand K 1 x K
Ligand TYE 1 x TYE
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X26C
Spacegroup: P21212
Unit cell:
a: 75.825Å b: 162.989Å c: 35.267Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.197 0.217
Expression system: Escherichia coli

Quick links

Citations

7 review citations

New functions of aminoacyl-tRNA synthetases beyond translation.
Guo et al. (2010)
6 more

18 mentions without citation

Imaging phenotype vs genotype in nonhypertrophic heritable cardiomyopathies: dilated cardiomyopathy and arrhythmogenic right ventricular cardiomyopathy.
Raman et al. (2010)
17 more