Histone H3 (h3c8.S) is a 136-residue protein from Xenopus laevis. This is its AlphaFold structure prediction, created 1 Jun 2022. UniProt accession: Q92133.
Explore in 3D Color by confidence AlphaFold DB UniProt
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 | 70% |
| 70 to 90 | Confident: backbone generally right | 4% |
| 50 to 70 | Low: treat with caution | 26% |
| Below 50 | Very low: often disordered regions | 1% |
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 |
|---|---|---|---|
| 3MEA | X-ray | 1.26 Å | B=2-12 |
| 3MEU | X-ray | 1.28 Å | C/D=2-14 |
| 3ME9 | X-ray | 1.37 Å | C/D=2-12 |
| 3H91 | X-ray | 1.5 Å | C/D=20-34 |
| 3O7A | X-ray | 1.67 Å | B=2-12 |
| 3MEV | X-ray | 1.83 Å | C/D=2-9 |
| 3GL6 | X-ray | 1.9 Å | B=2-10 |
| 4HSU | X-ray | 1.99 Å | C=2-31 |
| 3MET | X-ray | 2.0 Å | C/D=2-12 |
| 7CRQ | EM | 3.15 Å | E/M=2-136 |
| 7CRP | EM | 3.2 Å | E/M=2-136 |
| 7UNK | EM | 3.45 Å | C=1-136 |
| 7CRR | EM | 3.48 Å | E/M=2-136 |
| 6UH5 | EM | 3.5 Å | A/E=2-136 |
| 6UGM | EM | 3.7 Å | A/E=2-136 |
| 7CRO | EM | 3.75 Å | E/M=2-136 |
| 6VZ4 | EM | 3.9 Å | A/E=1-136 |
| 6G0L | EM | 10.0 Å | A/E=1-136 |
| 2L1B | NMR | B=20-34 |
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