H-2 class II histocompatibility antigen, A-K alpha chain (H2-Aa) is a 256-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P01910.
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The mean pLDDT of this model is 88.4 (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 | 71% |
| 70 to 90 | Confident: backbone generally right | 17% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 4% |
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 |
|---|---|---|---|
| 1IAK | X-ray | 1.9 Å | A=24-222 |
| 9L1L | EM | 3.09 Å | A=26-204 |
| 1D9K | X-ray | 3.2 Å | C/G=27-209 |
| 1JL4 | X-ray | 4.3 Å | A=31-208 |
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