› 2zdc

X-ray diffraction
2Å resolution

Crystal structure of dUTPase from Sulfolobus tokodaii

Released:
DOI: 10.2210/pdb2zdc/pdb
PDB entry 2zdc coloured by chain, front view.
PDB entry 2zdc coloured by chain, side view.
PDB entry 2zdc coloured by chain, top view.
Source organism: Sulfurisphaera tokodaii str. 7
Entry authors: Kanagawa M, Baba S, Kuramitsu S, Yokoyama S, Kawai G, Sampei G, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
dUTP + H(2)O = dUMP + diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123820 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
dUTPase-like domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 169 amino acids
Theoretical weight: 19 KDa
Source organism: Sulfurisphaera tokodaii str. 7
Expression system: Escherichia coli
UniProt:
  • Canonical: F9VNI5 (Residues: 1-159; Coverage: 100%)
Gene names: ST1632, STK_16320
Sequence domains: dUTPase
Structure domains: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A

Ligands and Environments

2 bound ligands:
Ligand SO4 3 x SO4
Ligand TRS 1 x TRS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P1
Unit cell:
a: 53.434Å b: 53.408Å c: 53.419Å
α: 108.56° β: 108.57° γ: 108.48°
R-values:
R R work R free
0.218 0.218 0.256
Expression system: Escherichia coli

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