H-2 class II histocompatibility antigen, A-U beta chain is a 263-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P06344.
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The mean pLDDT of this model is 86.7 (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 | 65% |
| 70 to 90 | Confident: backbone generally right | 17% |
| 50 to 70 | Low: treat with caution | 15% |
| Below 50 | Very low: often disordered regions | 3% |
What pLDDT means and how to read it
Membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 2P24 | X-ray | 2.15 Å | B=28-224 |
| 1K2D | X-ray | 2.2 Å | B=28-216 |
| 2PXY | X-ray | 2.23 Å | D=29-217 |
| 1U3H | X-ray | 2.42 Å | D/H=28-216 |
| 2Z31 | X-ray | 2.7 Å | D=28-216 |
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.