› 5h70

X-ray diffraction
2.4Å resolution

Crystal structure of ADP bound dTMP kinase (st1543) from Sulfolobus Tokodaii Strain7

Released:
DOI: 10.2210/pdb5h70/pdb
PDB entry 5h70 coloured by chain, front view.
PDB entry 5h70 coloured by chain, side view.
PDB entry 5h70 coloured by chain, top view.
Source organism: Sulfurisphaera tokodaii str. 7
Entry authors: Biswas A, Jeyakanthan J, Sekar K, Kuramitsu S, Yokoyama S

Function and Biology Details

Reaction catalysed: 
ATP + dTMP = ADP + dTDP
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-188812 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable thymidylate kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 213 amino acids
Theoretical weight: 24.63 KDa
Source organism: Sulfurisphaera tokodaii str. 7
Expression system: Escherichia coli
UniProt:
  • Canonical: Q970Q8 (Residues: 1-213; Coverage: 100%)
Gene names: STK_15430, tmk
Sequence domains: Thymidylate kinase
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

4 bound ligands:
Ligand ADP 2 x ADP
Ligand EDO 2 x EDO
Ligand MG 2 x MG
Ligand PGE 1 x PGE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P212121
Unit cell:
a: 49.171Å b: 63.799Å c: 141.758Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.236 0.233 0.3
Expression system: Escherichia coli

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