› 1n3l

X-ray diffraction
1.18Å resolution

Crystal structure of a human aminoacyl-tRNA synthetase cytokine

Released:
DOI: 10.2210/pdb1n3l/pdb
PDB entry 1n3l coloured by chain, front view.
PDB entry 1n3l coloured by chain, side view.
PDB entry 1n3l coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of a human aminoacyl-tRNA synthetase cytokine.
Yang XL, Skene RJ, McRee DE, Schimmel P
Proc Natl Acad Sci U S A 99 15369-74 (2002)
PMID: 12427973

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

2 bound ligands:
Ligand SO4 4 x SO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P21212
Unit cell:
a: 74.595Å b: 162.392Å c: 35.603Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.18 0.223
Expression system: Escherichia coli

Quick links

Citations

13 review citations

Aminoacyl tRNA synthetases and their connections to disease.
Park et al. (2008)
12 more

19 mentions without citation

Neurodegenerative Charcot-Marie-Tooth disease as a case study to decipher novel functions of aminoacyl-tRNA synthetases.
Wei et al. (2019)
18 more