› 1b5e

X-ray diffraction
1.6Å resolution

DCMP HYDROXYMETHYLASE FROM T4

Released:
DOI: 10.2210/pdb1b5e/pdb
Model geometry
Fit model/data
PDB entry 1b5e coloured by chain, front view.
PDB entry 1b5e coloured by chain, side view.
PDB entry 1b5e coloured by chain, top view.
Source organism: Escherichia virus T4
Primary publication:
Crystal structure of deoxycytidylate hydroxymethylase from bacteriophage T4, a component of the deoxyribonucleoside triphosphate-synthesizing complex.
Song HK, Sohn SH, Suh SW
EMBO J 18 1104-13 (1999)
PMID: 10064578

Function and Biology Details

Reaction catalysed: 
5,10-methylenetetrahydrofolate + H(2)O + deoxycytidylate = tetrahydrofolate + 5-hydroxymethyldeoxycytidylate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
homo tetramer
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140376 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Deoxycytidylate 5-hydroxymethyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 246 amino acids
Theoretical weight: 28.52 KDa
Source organism: Escherichia virus T4
UniProt:
  • Canonical: P08773 (Residues: 1-246; Coverage: 100%)
Gene name: 42
Sequence domains: Thymidylate synthase
Structure domains: Thymidylate synthase/dCMP hydroxymethylase domain

Ligands and Environments

1 bound ligand:
Ligand DCM 2 x DCM
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: C2
Unit cell:
a: 174.22Å b: 53.12Å c: 75.17Å
α: 90° β: 115.29° γ: 90°
R-values:
R R work R free
0.189 0.189 0.208

Quick links

Citations

4 review citations

Bacteriophage T4 genome.
Miller et al. (2003)
3 more

6 mentions without citation

Trading in cooperativity for specificity to maintain uracil-free DNA.
Szabó et al. (2016)
5 more