Histone H2B (LOC108704303) is a 126-residue protein from Xenopus laevis. This is its AlphaFold structure prediction, created 31 Mar 2025. UniProt accession: A0A8J0U496.
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The mean pLDDT of this model is 82.7 (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 | 67% |
| 70 to 90 | Confident: backbone generally right | 4% |
| 50 to 70 | Low: treat with caution | 26% |
| Below 50 | Very low: often disordered regions | 3% |
What pLDDT means and how to read it
The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA
Chromosome, Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9UX9 | EM | 3.05 Å | D/H=5-126 |
| 9KQ2 | EM | 3.9 Å | D/H=5-126 |
| 8GXS | EM | 4.16 Å | ND/NH=1-126 |
| 8GXQ | EM | 5.04 Å | ND/NH=1-126 |
| 9V33 | EM | 5.9 Å | D/H=5-126 |
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