› 1wq4

X-ray diffraction
2Å resolution

Escherichia coli tyrosyl-tRNA synthetase mutant complexed with L-tyrosine

Released:
DOI: 10.2210/pdb1wq4/pdb
PDB entry 1wq4 coloured by chain, front view.
PDB entry 1wq4 coloured by chain, side view.
PDB entry 1wq4 coloured by chain, top view.
Source organism: Escherichia coli str. K-12 substr. W3110
Primary publication:
Structural basis of nonnatural amino acid recognition by an engineered aminoacyl-tRNA synthetase for genetic code expansion.
Kobayashi T, Sakamoto K, Takimura T, Sekine R, Kelly VP, Vincent K, Kamata K, Nishimura S, Yokoyama S
Proc Natl Acad Sci U S A 102 1366-71 (2005)
PMID: 15671170

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 analysis Details

Assemblies composition:
homo dimer
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142837 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tyrosine--tRNA ligase Chain: A
Molecule details ›
Chain: A
Length: 321 amino acids
Theoretical weight: 35.85 KDa
Source organism: Escherichia coli str. K-12 substr. W3110
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0AGJ9 (Residues: 2-322; Coverage: 76%)
Gene names: JW1629, b1637, tyrS
Sequence domains: tRNA synthetases class I (W and Y)
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand TYR 1 x TYR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P3121
Unit cell:
a: 82.913Å b: 82.913Å c: 92.987Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.187 0.187 0.224
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Expanding the genetic code.
Wang et al. (2006)
2 more

2 mentions without citation

Combining specificity determining and conserved residues improves functional site prediction.
Kalinina et al. (2009)
1 more