› 4hk4

X-ray diffraction
2.3Å resolution

Crystal structure of apo Tyrosine-tRNA ligase mutant protein

Released:
DOI: 10.2210/pdb4hk4/pdb
PDB entry 4hk4 coloured by chain, front view.
PDB entry 4hk4 coloured by chain, side view.
PDB entry 4hk4 coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii
Entry authors: Yu Y, Zhou Q, Dong J, Li J, Xiaoxuan L, Mukherjee A, Ouyang H, Nilges M, Li H, Gao F, Gong W, Lu Y, Wang J

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 analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176482 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tyrosine--tRNA ligase Chain: A
Molecule details ›
Chain: A
Length: 312 amino acids
Theoretical weight: 35.64 KDa
Source organism: Methanocaldococcus jannaschii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q57834 (Residues: 1-306; Coverage: 100%)
Gene names: MJ0389, tyrS
Sequence domains: tRNA synthetases class I (W and Y)
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand PEG 2 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P2
Unit cell:
a: 52.695Å b: 38.886Å c: 83.061Å
α: 90° β: 90.98° γ: 90°
R-values:
R R work R free
0.231 0.229 0.277
Expression system: Escherichia coli

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