› 5jki

X-ray diffraction
2.25Å resolution

Crystal structure of the first transmembrane PAP2 type phosphatidylglycerolphosphate phosphatase from Bacillus subtilis

Released:
DOI: 10.2210/pdb5jki/pdb
PDB entry 5jki coloured by chain, front view.
PDB entry 5jki coloured by chain, side view.
PDB entry 5jki coloured by chain, top view.
Source organism: Bacillus subtilis subsp. subtilis str. 168
Primary publication:
Crystal structure and biochemical characterization of the transmembrane PAP2 type phosphatidylglycerol phosphate phosphatase from Bacillus subtilis.
Ghachi ME, Howe N, Auger R, Lambion A, Guiseppi A, Delbrassine F, Manat G, Roure S, Peslier S, Sauvage E, Vogeley L, Rengifo-Gonzalez JC, Charlier P, Mengin-Lecreulx D, Foglino M, Touzé T, Caffrey M, Kerff F
Cell Mol Life Sci 74 2319-2332 (2017)
PMID: 28168443

Function and Biology Details

Reaction catalysed: 
Phosphatidylglycerophosphate + H(2)O = phosphatidylglycerol + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128532 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphatidylglycerophosphatase B Chain: A
Molecule details ›
Chain: A
Length: 222 amino acids
Theoretical weight: 25.16 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O34349 (Residues: 1-203; Coverage: 100%)
Gene names: BSU19650, pgpB, yodM
Sequence domains: PAP2 superfamily

Ligands and Environments

3 bound ligands:
Ligand WO4 1 x WO4
Ligand OLC 1 x OLC
Ligand UNL 4 x UNL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: I222
Unit cell:
a: 70.066Å b: 76.961Å c: 99.629Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.201 0.231
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Undecaprenyl phosphate metabolism in Gram-negative and Gram-positive bacteria.
Kawakami et al. (2018)
8 other articles

3 mentions without citation

In silico and in vitro studies of lupeol and iso-orientin as potential antidiabetic agents in a rat model.
Malik et al. (2019)
2 more