› 3w34

X-ray diffraction
1.91Å resolution

Ternary complex of Thermus thermophilus HB8 uridine-cytidine kinase with substrates

Released:
DOI: 10.2210/pdb3w34/pdb
PDB entry 3w34 coloured by chain, front view.
PDB entry 3w34 coloured by chain, side view.
PDB entry 3w34 coloured by chain, top view.
Source organism: Thermus thermophilus HB8
Primary publication:
Structural and Biochemical Studies on the Reaction Mechanism of Uridine-Cytidine Kinase.
Tomoike F, Nakagawa N, Kuramitsu S, Masui R
Protein J 34 411-20 (2015)
PMID: 26510656

Function and Biology Details

Reaction catalysed: 
ATP + cytidine = ADP + CMP
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178105 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Uridine kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 211 amino acids
Theoretical weight: 23.71 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5SKR5 (Residues: 1-211; Coverage: 100%)
Gene names: TTHA0578, udk
Sequence domains: Phosphoribulokinase / Uridine kinase family
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand CTN 2 x CTN
Ligand ACP 2 x ACP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P21212
Unit cell:
a: 68.73Å b: 126.952Å c: 61.726Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.243
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Purine and pyrimidine salvage pathway in thermophiles: a valuable source of biocatalysts for the industrial production of nucleic acid derivatives.
Del Arco et al. (2018)
6 other articles

1 mention without citation

Indispensable residue for uridine binding in the uridine-cytidine kinase family.
Tomoike et al. (2017)