Histone H2B 1.1 is a 126-residue protein from Xenopus laevis. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P02281.
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The mean pLDDT of this model is 85.9 (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 | 68% |
| 70 to 90 | Confident: backbone generally right | 3% |
| 50 to 70 | Low: treat with caution | 29% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling
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
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6W4L | X-ray | 1.31 Å | A=34-126 |
| 8ZVY | X-ray | 1.72 Å | A/B=34-126 |
| 1KX5 | X-ray | 1.94 Å | D/H=2-126 |
| 1KX3 | X-ray | 2.0 Å | D/H=2-126 |
| 1S32 | X-ray | 2.05 Å | D/H=5-126 |
| 3UTA | X-ray | 2.07 Å | D/H=2-126 |
| 3UT9 | X-ray | 2.2 Å | D/H=2-126 |
| 3UTB | X-ray | 2.2 Å | D/H=2-126 |
| 6WZ5 | EM | 2.2 Å | D/H=5-126 |
| 8RUQ | EM | 2.29 Å | D/H=5-126 |
| 1M19 | X-ray | 2.3 Å | D/H=2-126 |
| 1P3I | X-ray | 2.3 Å | D/H=2-126 |
| 3MGR | X-ray | 2.3 Å | D/H=2-126 |
| 7TN2 | EM | 2.3 Å | D/H=5-126 |
| 8G86 | EM | 2.3 Å | D/H=5-126 |
| 9F0O | EM | 2.3 Å | D/H=30-126 |
| 9JNP | EM | 2.3 Å | D/H=5-126 |
| 5OMX | X-ray | 2.32 Å | D/H=5-126 |
| 4KHA | X-ray | 2.35 Å | A=34-126 |
| 6YN1 | X-ray | 2.35 Å | B/G/L/Q/V/a/f/k=28-126 |
Showing 20 of 363 experimental structures (best resolution first).
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