E3 ubiquitin-protein ligase SopA (sopA) is a 782-residue protein from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q8ZNR3.
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The mean pLDDT of this model is 82.3 (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 | 68% |
| 70 to 90 | Confident: backbone generally right | 10% |
| 50 to 70 | Low: treat with caution | 3% |
| Below 50 | Very low: often disordered regions | 19% |
What pLDDT means and how to read it
Effector proteins function to alter host cell physiology and promote bacterial survival in host tissues. This protein is an E3 ubiquitin ligase that interferes with host's ubiquitination pathway (PubMed:28084320). For instance, prevents host innate immune response by ubiquitinating and thus sending to degradation host E3 ubiquitin ligases TRIM56 and TRIM65 (PubMed:28084320). Required for inducing polymorphonuclear leukocytes migration across the intestinal epithelium. Preferentially uses host UBE2D1 (UBCH5A), UBE2D2 (UBCH5B) and UBE2L3 (UBCH7) as E2 ubiquitin-conjugating enzymes
Interacts with SpaK/InvB
Secreted, Host cell
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8ST8 | X-ray | 1.75 Å | A=603-782 |
| 2QYU | X-ray | 2.1 Å | A=163-782 |
| 2QZA | X-ray | 2.8 Å | A/B=165-782 |
| 5JW7 | X-ray | 2.85 Å | A=163-425 |
| 3SY2 | X-ray | 3.27 Å | A/B=165-782 |
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