› 3b07

X-ray diffraction
2.5Å resolution

Crystal structure of octameric pore form of gamma-hemolysin from Staphylococcus aureus

Released:
DOI: 10.2210/pdb3b07/pdb
PDB entry 3b07 coloured by chain, front view.
PDB entry 3b07 coloured by chain, side view.
PDB entry 3b07 coloured by chain, top view.
Source organism: Staphylococcus aureus subsp. aureus Mu50
Primary publication:
Crystal structure of the octameric pore of staphylococcal γ-hemolysin reveals the β-barrel pore formation mechanism by two components.
Yamashita K, Kawai Y, Tanaka Y, Hirano N, Kaneko J, Tomita N, Ohta M, Kamio Y, Yao M, Tanaka I
Proc Natl Acad Sci U S A 108 17314-9 (2011)
PMID: 21969538

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-101995 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Leukocidin/Hemolysin toxin domain-containing protein Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 309 amino acids
Theoretical weight: 35.26 KDa
Source organism: Staphylococcus aureus subsp. aureus Mu50
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0H3JX61 (Residues: 27-325; Coverage: 100%)
Gene names: SAV2421, hlgB
Sequence domains: Leukocidin/Hemolysin toxin family
Structure domains: Leukocidin/porin MspA
Gamma-hemolysin component A Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 290 amino acids
Theoretical weight: 33.19 KDa
Source organism: Staphylococcus aureus subsp. aureus Mu50
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A071 (Residues: 30-309; Coverage: 100%)
Gene names: SAV2419, hlg2, hlgA
Sequence domains: Leukocidin/Hemolysin toxin family
Structure domains: Leukocidin/porin MspA

Ligands and Environments

1 bound ligand:
Ligand MPD 4 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: C2221
Unit cell:
a: 206.454Å b: 206.141Å c: 190.299Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.207 0.236
Expression system: Escherichia coli

Quick links

Citations

21 review citations

Pore-forming toxins: ancient, but never really out of fashion.
Dal Peraro et al. (2016)
20 more

22 mentions without citation

Leukocidins: staphylococcal bi-component pore-forming toxins find their receptors.
Spaan et al. (2017)
21 more