› 4q6x

X-ray diffraction
2.14Å resolution

Structure of phospholipase D Beta1B1i from Sicarius terrosus venom at 2.14 A resolution

Released:
DOI: 10.2210/pdb4q6x/pdb
PDB entry 4q6x coloured by chain, front view.
PDB entry 4q6x coloured by chain, side view.
PDB entry 4q6x coloured by chain, top view.
Source organism: Sicarius terrosus
Primary publication:
Variable Substrate Preference among Phospholipase D Toxins from Sicariid Spiders.
Lajoie DM, Roberts SA, Zobel-Thropp PA, Delahaye JL, Bandarian V, Binford GJ, Cordes MH
J Biol Chem 290 10994-1007 (2015)
PMID: 25752604

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-101116 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dermonecrotic toxin StSicTox-betaIB1i Chain: A
Molecule details ›
Chain: A
Length: 301 amino acids
Theoretical weight: 34.29 KDa
Source organism: Sicarius terrosus
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0D4WV12 (Residues: 1-279; Coverage: 100%)
Sequence domains: Glycerophosphoryl diester phosphodiesterase family
Structure domains: Phosphatidylinositol (PI) phosphodiesterase

Ligands and Environments

1 bound ligand:
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P32
Unit cell:
a: 49.222Å b: 49.222Å c: 90.114Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.167 0.164 0.221
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Highlights in the knowledge of brown spider toxins.
Chaves-Moreira et al. (2017)
3 more

5 mentions without citation

Variable Substrate Preference among Phospholipase D Toxins from Sicariid Spiders.
Lajoie et al. (2015)
4 more