Invasin IpaA (ipaA) is a 633-residue protein from Shigella flexneri. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P18010.
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The mean pLDDT of this model is 51.7 (low 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 | 14% |
| 70 to 90 | Confident: backbone generally right | 14% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 63% |
What pLDDT means and how to read it
Rapidly associates with the first 265 amino acids of vinculin after bacteria-cell contact. This interaction is critical for efficient Shigella uptake. IpaA acts as a potent activator of vinculin and increase its ability to interact with F-actin. The complex IpaA-vinculin induces F-actin depolymerization along with the occasional formation of actin filament bundles
The association of the vinculin-IpaA complex with actin occurs via the F-actin binding domain located on the tail of vinculin
Secreted
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3RF3 | X-ray | 1.61 Å | C/D=488-512 |
| 5NL1 | X-ray | 2.5 Å | G/H/I/J/K/L=488-512 |
| 2GWW | X-ray | 2.72 Å | B=602-631 |
| 2GDC | X-ray | 2.74 Å | B=612-630 |
| 2IBF | X-ray | 3.2 Å | B/D=563-587 |
| 2HSQ | X-ray | 3.97 Å | B=565-587 |
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