› 3a4m

X-ray diffraction
1.79Å resolution

Crystal structure of archaeal O-phosphoseryl-tRNA(Sec) kinase

Released:
DOI: 10.2210/pdb3a4m/pdb
PDB entry 3a4m coloured by chain, front view.
PDB entry 3a4m coloured by chain, side view.
PDB entry 3a4m coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii
Primary publication:
Structure of a tRNA-dependent kinase essential for selenocysteine decoding.
Araiso Y, Sherrer RL, Ishitani R, Ho JM, Söll D, Nureki O
Proc Natl Acad Sci U S A 106 16215-20 (2009)
PMID: 19805283

Function and Biology Details

Reaction catalysed: 
ATP + L-seryl-tRNA(Sec) = ADP + O-phospho-L-seryl-tRNA(Sec)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176713 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
L-seryl-tRNA(Sec) kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 260 amino acids
Theoretical weight: 31.01 KDa
Source organism: Methanocaldococcus jannaschii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q58933 (Residues: 1-248; Coverage: 100%)
Gene names: MJ1538, pstK
Sequence domains: Chromatin associated protein KTI12
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand ADP 2 x ADP
Ligand MG 2 x MG
Ligand IOD 2 x IOD
Ligand EDO 4 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A, SPRING-8 BEAMLINE BL41XU
Spacegroup: P21
Unit cell:
a: 58.156Å b: 74.524Å c: 64.817Å
α: 90° β: 113.37° γ: 90°
R-values:
R R work R free
0.211 0.209 0.252
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Selenocysteine, pyrrolysine, and the unique energy metabolism of methanogenic archaea.
Rother et al. (2010)
2 more

3 mentions without citation

Structure of a tRNA-dependent kinase essential for selenocysteine decoding.
Araiso et al. (2009)
2 more