› 1qmd

X-ray diffraction
2.2Å resolution

calcium bound closed form alpha-toxin from Clostridium perfringens

Released:
DOI: 10.2210/pdb1qmd/pdb
PDB entry 1qmd coloured by chain, front view.
PDB entry 1qmd coloured by chain, side view.
PDB entry 1qmd coloured by chain, top view.
Source organism: Clostridium perfringens
Primary publication:
Characterisation of the calcium-binding C-terminal domain of Clostridium perfringens alpha-toxin.
Naylor CE, Jepson M, Crane DT, Titball RW, Miller J, Basak AK, Bolgiano B
J Mol Biol 294 757-70 (1999)
PMID: 10610794

Function and Biology Details

Reaction catalysed: 
A phosphatidylcholine + H(2)O = 1,2-diacyl-sn-glycerol + phosphocholine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171168 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phospholipase C Chains: A, B
Molecule details ›
Chains: A, B
Length: 370 amino acids
Theoretical weight: 42.58 KDa
Source organism: Clostridium perfringens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q0TV31 (Residues: 29-398; Coverage: 100%)
Gene names: CPF_0042, cpa, plc
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 4 x ZN
Ligand CA 6 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX7.2
Spacegroup: R32
Unit cell:
a: 149.89Å b: 149.89Å c: 192.93Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.198 0.198 0.235
Expression system: Escherichia coli

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Citations

7 review citations

A comprehensive model of positional and stereo control in lipoxygenases.
Coffa et al. (2005)
6 more

6 mentions without citation

Improving structure-based function prediction using molecular dynamics.
Glazer et al. (2009)
5 more