› 3c3i

X-ray diffraction
3Å resolution

Evolution of chlorella virus dUTPase

Released:
DOI: 10.2210/pdb3c3i/pdb
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PDB entry 3c3i coloured by chain, front view.
PDB entry 3c3i coloured by chain, side view.
PDB entry 3c3i coloured by chain, top view.
Source organism: Paramecium bursaria Chlorella virus IL3A
Primary publication:
Crystallization and crystal-packing studies of Chlorella virus deoxyuridine triphosphatase.
Homma K, Moriyama H
OpenAccess logo Acta Crystallogr Sect F Struct Biol Cryst Commun 65 1030-4 (2009)
PMID: 19851015

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-177245 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
dUTP diphosphatase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 141 amino acids
Theoretical weight: 14.82 KDa
Source organism: Paramecium bursaria Chlorella virus IL3A
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5I3E5 (Residues: 1-141; Coverage: 100%)
Gene names: IL-3A_613L, PBCVIL3A_613L
Sequence domains: dUTPase
Structure domains: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A

Ligands and Environments

2 bound ligands:
Ligand MG 2 x MG
Ligand DUD 4 x DUD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P63
Unit cell:
a: 132.069Å b: 132.069Å c: 53.451Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.195 0.195 0.258
Expression system: Escherichia coli

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Citations

3 citation in other articles

Evolution of the Kdo2-lipid A biosynthesis in bacteria.
Opiyo et al. (2010)
2 more

3 mentions without citation

Structure and activity of the Saccharomyces cerevisiae dUTP pyrophosphatase DUT1, an essential housekeeping enzyme.
Tchigvintsev et al. (2011)
2 more

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