› 2nxf

X-ray diffraction
1.7Å resolution

Crystal Structure of a dimetal phosphatase from Danio rerio LOC 393393

Released:
DOI: 10.2210/pdb2nxf/pdb
PDB entry 2nxf coloured by chain, front view.
PDB entry 2nxf coloured by chain, side view.
PDB entry 2nxf coloured by chain, top view.
Source organism: Danio rerio
Entry authors: Bitto E, Wesenberg GE, Phillips Jr GN, McCoy JG, Bingman CA, Center for Eukaryotic Structural Genomics (CESG)

Function and Biology Details

Reactions catalysed: 
ADP-D-ribose + H(2)O = AMP + D-ribose 5-phosphate
CDP-glycerol + H(2)O = CMP + sn-glycerol 3-phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-182002 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Manganese-dependent ADP-ribose/CDP-alcohol diphosphatase Chain: A
Molecule details ›
Chain: A
Length: 322 amino acids
Theoretical weight: 36.79 KDa
Source organism: Danio rerio
Expression system: Escherichia coli
UniProt:
  • Canonical: Q7T291 (Residues: 2-322; Coverage: 100%)
Gene names: adprm, zgc:64213
Sequence domains: Calcineurin-like phosphoesterase
Structure domains: Purple Acid Phosphatase; chain A, domain 2

Ligands and Environments

3 bound ligands:
Ligand ZN 4 x ZN
Ligand PO4 1 x PO4
Ligand EOH 1 x EOH
1 modified residue:
Ligand MSE 3 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: C2221
Unit cell:
a: 62.584Å b: 86.593Å c: 157.315Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.161 0.18
Expression system: Escherichia coli

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