Alpha-hemolysin (hly) is a 319-residue protein from Staphylococcus aureus (strain NCTC 8325 / PS 47). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q2G1X0.
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The mean pLDDT of this model is 82.8 (confident overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 63% |
| 70 to 90 | Confident: backbone generally right | 17% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 14% |
What pLDDT means and how to read it
Alpha-toxin binds to the membrane of eukaryotic cells resulting in the release of low-molecular weight molecules and leading to an eventual osmotic lysis. Inhibits host neutrophil chemotaxis to the lesion region (Probable). Heptamer oligomerization and pore formation is required for lytic activity (By similarity)
Self-assembles to form first a non-lytic oligomeric intermediate and then, a mushroom-shaped homoheptamer structure of 100 Angstroms in length and up to 100 Angstroms in diameter
Secreted
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9SHR | X-ray | 2.08 Å | A=27-319 |
| 4U6V | X-ray | 2.56 Å | A/B=27-319 |
| 9KG0 | EM | 2.6 Å | A/B/C/D/E/F/G=27-319 |
| 9KTO | EM | 2.6 Å | A/B/C/D/E/F/G=27-319 |
| 9KG6 | EM | 2.8 Å | A/B/C/D/E/F/G=27-319 |
| 9KRF | EM | 2.8 Å | A/B/C/D/E/F/G=27-319 |
| 9KG1 | EM | 2.9 Å | A/B/C/D/E/F/G=27-319 |
| 9KTM | EM | 2.9 Å | A/B/C/D/E/F/G=27-319 |
| 9KRE | EM | 3.0 Å | A/B/C/D/E/F/G=27-319 |
| 9KG3 | EM | 3.07 Å | A/B/C/D/E/F/G=27-319 |
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