WH2 domain-containing protein (VPA1370) is a 484-residue protein from Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633). This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: Q87GE5.
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The mean pLDDT of this model is 66.6 (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 | 31% |
| 70 to 90 | Confident: backbone generally right | 21% |
| 50 to 70 | Low: treat with caution | 16% |
| Below 50 | Very low: often disordered regions | 33% |
What pLDDT means and how to read it
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3SEO | X-ray | 2.31 Å | A/B=247-484 |
| 3M1F | X-ray | 2.89 Å | V=130-160 |
| 3RYL | X-ray | 3.1 Å | A/B=247-484 |
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.