› 1pkh

X-ray diffraction
1.42Å resolution

STRUCTURAL BASIS FOR RECOGNITION AND CATALYSIS BY THE BIFUNCTIONAL DCTP DEAMINASE AND DUTPASE FROM METHANOCOCCUS JANNASCHII

Released:
DOI: 10.2210/pdb1pkh/pdb
PDB entry 1pkh coloured by chain, front view.
PDB entry 1pkh coloured by chain, side view.
PDB entry 1pkh coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii
Primary publication:
Structural basis for recognition and catalysis by the bifunctional dCTP deaminase and dUTPase from Methanococcus jannaschii.
Huffman JL, Li H, White RH, Tainer JA
J Mol Biol 331 885-96 (2003)
PMID: 12909016

Function and Biology Details

Reaction catalysed: 
dCTP + 2 H(2)O = dUMP + diphosphate + NH(3)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
homo hexamer
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176491 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
dCTP deaminase, dUMP-forming Chains: A, B
Molecule details ›
Chains: A, B
Length: 204 amino acids
Theoretical weight: 23.46 KDa
Source organism: Methanocaldococcus jannaschii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q57872 (Residues: 1-204; Coverage: 100%)
Gene names: MJ0430, dcd
Sequence domains: dUTPase
Structure domains: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A

Ligands and Environments

1 bound ligand:
Ligand EDO 9 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P213
Unit cell:
a: 110.7Å b: 110.7Å c: 110.7Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.186 0.185 0.203
Expression system: Escherichia coli

Quick links

Citations

3 review citations

DNA base damage recognition and removal: new twists and grooves.
Huffman et al. (2005)
2 more

1 mention without citation

Flexible segments modulate co-folding of dUTPase and nucleocapsid proteins.
Németh-Pongrácz et al. (2007)