H-2 class II histocompatibility antigen, A-U alpha chain (H2-Aa) is a 227-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P14438.
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The mean pLDDT of this model is 92.8 (very high 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 | 85% |
| 70 to 90 | Confident: backbone generally right | 6% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 2% |
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 | A=1-190 |
| 1K2D | X-ray | 2.2 Å | A=1-179 |
| 2PXY | X-ray | 2.23 Å | C=1-178 |
| 1U3H | X-ray | 2.42 Å | C/G=1-179 |
| 2Z31 | X-ray | 2.7 Å | C=1-178 |
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