› 4cml

X-ray diffraction
2.3Å resolution

Crystal Structure of INPP5B in complex with Phosphatidylinositol 3,4- bisphosphate

Released:
DOI: 10.2210/pdb4cml/pdb
PDB entry 4cml coloured by chain, front view.
PDB entry 4cml coloured by chain, side view.
PDB entry 4cml coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for phosphoinositide substrate recognition, catalysis, and membrane interactions in human inositol polyphosphate 5-phosphatases.
Trésaugues L, Silvander C, Flodin S, Welin M, Nyman T, Gräslund S, Hammarström M, Berglund H, Nordlund P
Structure 22 744-55 (2014)
PMID: 24704254

Function and Biology Details

Reaction catalysed: 
1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 4-phosphate + phosphate
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-152191 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Type II inositol 1,4,5-trisphosphate 5-phosphatase Chain: A
Molecule details ›
Chain: A
Length: 313 amino acids
Theoretical weight: 36.2 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P32019 (Residues: 339-643; Coverage: 31%)
Gene names: INPP5B, OCRL2
Structure domains: Endonuclease/exonuclease/phosphatase

Ligands and Environments

5 bound ligands:
Ligand 52N 1 x 52N
Ligand MG 1 x MG
Ligand CL 1 x CL
Ligand SO4 1 x SO4
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX II BEAMLINE I911-2
Spacegroup: P213
Unit cell:
a: 133.661Å b: 133.661Å c: 133.661Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.176 0.175 0.199
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

The extended human PTPome: a growing tyrosine phosphatase family.
Alonso et al. (2016)
4 more

5 mentions without citation

Crystal Structures of Type-II Inositol Polyphosphate 5-Phosphatase INPP5B with Synthetic Inositol Polyphosphate Surrogates Reveal New Mechanistic Insights for the Inositol 5-Phosphatase Family.
Mills et al. (2016)
4 more