› 1h3e

X-ray diffraction
2.9Å resolution

Tyrosyl-tRNA synthetase from Thermus thermophilus complexed with wild-type tRNAtyr(GUA) and with ATP and tyrosinol

Released:
DOI: 10.2210/pdb1h3e/pdb
PDB entry 1h3e coloured by chain, front view.
PDB entry 1h3e coloured by chain, side view.
PDB entry 1h3e coloured by chain, top view.
Source organisms:
Primary publication:
Class I tyrosyl-tRNA synthetase has a class II mode of cognate tRNA recognition.
Yaremchuk A, Kriklivyi I, Tukalo M, Cusack S
EMBO J 21 3829-40 (2002)
PMID: 12110594

Function and Biology Details

Reaction catalysed: 
ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + L-tyrosyl-tRNA(Tyr)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160696 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Tyrosine--tRNA ligase Chain: A
Molecule details ›
Chain: A
Length: 432 amino acids
Theoretical weight: 48.79 KDa
Source organism: Thermus thermophilus HB27
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P83453 (Residues: 1-432; Coverage: 100%)
Gene names: TT_C1033, tyrS
Sequence domains: tRNA synthetases class I (W and Y)
Structure domains:
WILD-TYPE TRNATYR(GUA) Chain: B
Molecule details ›
Chain: B
Length: 86 nucleotides
Theoretical weight: 27.71 KDa
Source organism: Thermus thermophilus
Expression system: Not provided
Sequence domains: tRNA

Ligands and Environments

2 bound ligands:
Ligand ATP 1 x ATP
Ligand TYE 1 x TYE
3 modified residues:
Ligand PSU 2 x PSU
Ligand 5MU 1 x 5MU
Ligand 1MA 1 x 1MA

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P3121
Unit cell:
a: 129.525Å b: 129.525Å c: 109.451Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.219 0.219 0.269
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

14 review citations

Recent Advances in Mitochondrial Aminoacyl-tRNA Synthetases and Disease.
Sissler et al. (2017)
13 more

39 mentions without citation

Overview of protein structural and functional folds.
Sun et al. (2004)
38 more