› 2azx

X-ray diffraction
2.8Å resolution

Charged and uncharged tRNAs adopt distinct conformations when complexed with human tryptophanyl-tRNA synthetase

Released:
DOI: 10.2210/pdb2azx/pdb
PDB entry 2azx coloured by chain, front view.
PDB entry 2azx coloured by chain, side view.
PDB entry 2azx coloured by chain, top view.
Source organisms:
Primary publication:
Two conformations of a crystalline human tRNA synthetase-tRNA complex: implications for protein synthesis.
Yang XL, Otero FJ, Ewalt KL, Liu J, Swairjo MA, Köhrer C, RajBhandary UL, Skene RJ, McRee DE, Schimmel P
EMBO J 25 2919-29 (2006)
PMID: 16724112

Function and Biology Details

Reaction catalysed: 
ATP + L-tryptophan + tRNA(Trp) = AMP + diphosphate + L-tryptophyl-tRNA(Trp)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149946 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Tryptophan--tRNA ligase, cytoplasmic Chains: A, B
Molecule details ›
Chains: A, B
Length: 477 amino acids
Theoretical weight: 54.59 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P23381 (Residues: 1-471; Coverage: 100%)
Gene names: IFI53, WARS, WARS1, WRS
Sequence domains:
Structure domains:
72-MER Chains: C, D
Molecule details ›
Chains: C, D
Length: 75 nucleotides
Theoretical weight: 24.18 KDa
Source organism: Bos taurus
Expression system: Not provided
Sequence domains: tRNA

Ligands and Environments

4 bound ligands:
Ligand SO4 10 x SO4
Ligand TRP 3 x TRP
Ligand MG 1 x MG
Ligand GOL 2 x GOL
1 modified residue:
Ligand MSE 26 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: I212121
Unit cell:
a: 114.058Å b: 132.621Å c: 246.633Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.227 0.205 0.252
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

6 review citations

Aminoacyl-tRNA synthetase complexes: molecular multitasking revealed.
Hausmann et al. (2008)
5 more

14 mentions without citation

Personalized Medicine in Mitochondrial Health and Disease: Molecular Basis of Therapeutic Approaches Based on Nutritional Supplements and Their Analogs.
Tragni et al. (2022)
13 more