› 6mjk

X-ray diffraction
1.45Å resolution

Crystal Structure of dUTP pyrophosphatase protein, from Naegleria fowleri in complex with deoxyuridine

Released:
DOI: 10.2210/pdb6mjk/pdb
PDB entry 6mjk coloured by chain, front view.
PDB entry 6mjk coloured by chain, side view.
PDB entry 6mjk coloured by chain, top view.
Source organism: Naegleria fowleri
Entry author: Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103910 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Deoxyuridine 5'-triphosphate nucleotidohydrolase Chain: A
Molecule details ›
Chain: A
Length: 155 amino acids
Theoretical weight: 16.84 KDa
Source organism: Naegleria fowleri
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A1Z0YU86 (Residues: 1-147; Coverage: 100%)
Gene name: FDP41_011884
Sequence domains: dUTPase
Structure domains: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand DUR 1 x DUR
Ligand PPV 1 x PPV
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P213
Unit cell:
a: 74.23Å b: 74.23Å c: 74.23Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.137 0.134 0.17
Expression system: Escherichia coli BL21(DE3)

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