Histone H2B type 1-J (H2BC11) is a 126-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P06899.
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The mean pLDDT of this model is 85.5 (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 | 3% |
| 50 to 70 | Low: treat with caution | 16% |
| Below 50 | Very low: often disordered regions | 10% |
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 (PubMed:36435862). The octamer wraps approximately 147 bp of DNA. Heterodimer H2BC11 and H2AZ1 interacts with VPS72 (via N-terminal domain) (PubMed:24463511, PubMed:26974126)
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4CAY | X-ray | 1.48 Å | B=31-126 |
| 7VZ4 | EM | 1.89 Å | D/H=2-126 |
| 8I17 | X-ray | 1.98 Å | B/E/H=28-126 |
| 5B0Z | X-ray | 1.99 Å | D/H=1-126 |
| 5Y0D | X-ray | 1.99 Å | D/H=1-126 |
| 6IPU | X-ray | 1.99 Å | D/H=32-126 |
| 9INC | X-ray | 2.01 Å | B/E=34-125 |
| 5Y0C | X-ray | 2.09 Å | D/H=1-126 |
| 6JOU | X-ray | 2.17 Å | D/H=1-126 |
| 5X7X | X-ray | 2.18 Å | D/H=1-126 |
| 5AV6 | X-ray | 2.2 Å | D/H=1-126 |
| 5AV8 | X-ray | 2.2 Å | D/H=1-126 |
| 5AV9 | X-ray | 2.2 Å | D/H=1-126 |
| 5B31 | X-ray | 2.2 Å | D/H=1-126 |
| 6K1K | X-ray | 2.2 Å | D/H=1-126 |
| 6KVD | X-ray | 2.21 Å | D/H=1-126 |
| 6IQ4 | X-ray | 2.25 Å | D/H=32-126 |
| 6JXD | X-ray | 2.25 Å | D/H=30-126 |
| 8KB5 | EM | 2.26 Å | D/H=1-126 |
| 5B32 | X-ray | 2.35 Å | D/H=1-126 |
Showing 20 of 303 experimental structures (best resolution first).
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