› 2zr2

X-ray diffraction
2.8Å resolution

Crystal structure of seryl-tRNA synthetase from Pyrococcus horikoshii complexed with ATP

Released:
DOI: 10.2210/pdb2zr2/pdb
PDB entry 2zr2 coloured by chain, front view.
PDB entry 2zr2 coloured by chain, side view.
PDB entry 2zr2 coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Primary publication:
Crystallographic and mutational studies of seryl-tRNA synthetase from the archaeon Pyrococcus horikoshii.
Itoh Y, Sekine S, Kuroishi C, Terada T, Shirouzu M, Kuramitsu S, Yokoyama S
RNA Biol 5 169-77 (2008)
PMID: 18818520

Function and Biology Details

Reaction catalysed: 
ATP + L-serine + tRNA(Sec) = AMP + diphosphate + L-seryl-tRNA(Sec)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129727 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Serine--tRNA ligase Chains: A, B
Molecule details ›
Chains: A, B
Length: 455 amino acids
Theoretical weight: 53.34 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli
UniProt:
  • Canonical: O58441 (Residues: 1-455; Coverage: 100%)
Gene names: PH0710, PHCF014, serS
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand AMP 2 x AMP
Ligand SO4 7 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 96.656Å b: 120.499Å c: 126.777Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.192 0.251
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Distinct genetic code expansion strategies for selenocysteine and pyrrolysine are reflected in different aminoacyl-tRNA formation systems.
Yuan et al. (2010)
1 more

3 mentions without citation

Histone H2A/H2B dimer exchange by ATP-dependent chromatin remodeling activities.
Bruno et al. (2003)
2 more