Histone H3 (LOC121398065) is a 136-residue protein from Xenopus laevis. This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: A0A310TTQ1.
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The mean pLDDT of this model is 86.3 (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 | 69% |
| 70 to 90 | Confident: backbone generally right | 5% |
| 50 to 70 | Low: treat with caution | 24% |
| Below 50 | Very low: often disordered regions | 2% |
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 |
|---|---|---|---|
| 8RUQ | EM | 2.29 Å | E=2-136 |
| 9JNP | EM | 2.3 Å | A/E=2-136 |
| 8RUP | EM | 2.42 Å | E=2-136 |
| 9JNU | EM | 2.5 Å | A/E=2-136 |
| 9N6H | EM | 2.54 Å | A/E=39-136 |
| 9N6I | EM | 2.61 Å | A/E=37-136 |
| 9JNT | EM | 2.7 Å | A/E=2-136 |
| 9LIU | EM | 2.7 Å | A/E=2-136 |
| 9JO5 | EM | 2.8 Å | A/E=2-136 |
| 9C9X | EM | 2.83 Å | A/E=1-136 |
| 8KD3 | EM | 2.9 Å | O/S=2-136 |
| 9EGX | EM | 2.9 Å | a/e=1-136 |
| 9EGY | EM | 2.9 Å | a/e=1-136 |
| 9EGZ | EM | 2.9 Å | a/e=1-136 |
| 9JNW | EM | 2.9 Å | A/E=2-136 |
| 8EU2 | EM | 2.93 Å | A/E=1-136 |
| 9LJ2 | EM | 2.98 Å | A/E=38-135 |
| 9JNV | EM | 3.0 Å | A/E=2-136 |
| 9JNX | EM | 3.0 Å | A/E=2-136 |
| 9JNZ | EM | 3.0 Å | A/E=2-136 |
Showing 20 of 41 experimental structures (best resolution first).
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