› 3mcf

X-ray diffraction
2Å resolution

Crystal structure of human diphosphoinositol polyphosphate phosphohydrolase 3-alpha

Released:
DOI: 10.2210/pdb3mcf/pdb
PDB entry 3mcf coloured by chain, front view.
PDB entry 3mcf coloured by chain, side view.
PDB entry 3mcf coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Tresaugues L, Welin M, Arrowsmith CH, Berglund H, Bountra C, Collins R, Edwards AM, Flodin S, Flores A, Graslund S, Hammarstrom M, Johansson I, Karlberg T, Kol S, Kotenyova T, Moche M, Nyman T, Persson C, Schuler H, Schutz P, Siponen MI, Thorsell AG, van der Berg S, Wahlberg E, Weigelt J, Wisniewska M, Nordlund P, Structural Genomics Consortium (SGC)

Function and Biology Details

Reactions catalysed: 
Diphospho-myo-inositol polyphosphate + H(2)O = myo-inositol polyphosphate + phosphate
P(1),P(5)-bis(5'-adenosyl)pentaphosphate + H(2)O = adenosine 5'-tetraphosphate + AMP
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185535 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Diphosphoinositol polyphosphate phosphohydrolase 3-alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 136 amino acids
Theoretical weight: 15.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8NFP7 (Residues: 17-144; Coverage: 78%)
Gene names: APS2, DIPP3A, NUDT10
Sequence domains: NUDIX domain
Structure domains: Nucleoside Triphosphate Pyrophosphohydrolase

Ligands and Environments

2 bound ligands:
Ligand FLC 2 x FLC
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P212121
Unit cell:
a: 56.39Å b: 79.549Å c: 88.729Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.175 0.173 0.217
Expression system: Escherichia coli

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