› 3qeo

X-ray diffraction
1.9Å resolution

S74E-R104M-D133A dCK variant in complex with L-deoxythymidine and UDP

Released:
DOI: 10.2210/pdb3qeo/pdb
PDB entry 3qeo coloured by chain, front view.
PDB entry 3qeo coloured by chain, side view.
PDB entry 3qeo coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Post-translational phosphorylation of serine 74 of human deoxycytidine kinase favors the enzyme adopting the open conformation making it competent for nucleoside binding and release.
Hazra S, Szewczak A, Ort S, Konrad M, Lavie A
Biochemistry 50 2870-80 (2011)
PMID: 21351740

Function and Biology Details

Reactions catalysed: 
ATP + deoxyguanosine = ADP + dGMP
NTP + deoxycytidine = NDP + dCMP
ATP + deoxyadenosine = ADP + dAMP
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-541553 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Deoxycytidine kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 279 amino acids
Theoretical weight: 32.54 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P27707 (Residues: 1-145, 147-260, 1-260; Coverage: 100%)
Gene name: DCK
Sequence domains: Deoxynucleoside kinase
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand UDP 2 x UDP
Ligand LLT 2 x LLT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P41
Unit cell:
a: 68.76Å b: 68.76Å c: 120.597Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.195 0.244
Expression system: Escherichia coli

Quick links

Citations

1 review citation

New insights into the synergism of nucleoside analogs with radiotherapy.
Lee et al. (2013)
16 other articles

2 mentions without citation

Structure-guided engineering of human thymidine kinase 2 as a positron emission tomography reporter gene for enhanced phosphorylation of non-natural thymidine analog reporter probe.
Campbell et al. (2012)
1 more