› 5ujj

X-ray diffraction
2.1Å resolution

Crystal structure of human H130R tryptophanyl-tRNA synthetase in complex with TrpAMP

Released:
DOI: 10.2210/pdb5ujj/pdb
PDB entry 5ujj coloured by chain, front view.
PDB entry 5ujj coloured by chain, side view.
PDB entry 5ujj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An alternative conformation of human TrpRS suggests a role of zinc in activating non-enzymatic function.
Xu X, Zhou H, Zhou Q, Hong F, Vo MN, Niu W, Wang Z, Xiong X, Nakamura K, Wakasugi K, Schimmel P, Yang XL
RNA Biol 15 649-658 (2018)
PMID: 28910573

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 analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149944 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tryptophan--tRNA ligase, cytoplasmic Chains: A, B
Molecule details ›
Chains: A, B
Length: 484 amino acids
Theoretical weight: 54.78 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:

Ligands and Environments

2 bound ligands:
Ligand TYM 2 x TYM
Ligand MG 3 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: C2
Unit cell:
a: 136.352Å b: 95.277Å c: 99.623Å
α: 90° β: 130.46° γ: 90°
R-values:
R R work R free
0.216 0.216 0.232
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Unique roles of tryptophanyl-tRNA synthetase in immune control and its therapeutic implications.
Jin M. (2019)
5 other articles

2 mentions without citation

Deep profiling of protease substrate specificity enabled by dual random and scanned human proteome substrate phage libraries.
Zhou et al. (2020)
1 more