Histone H2B type 1-C/E/F/G/I (H2BC4) is a 126-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P62807.
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The mean pLDDT of this model is 88.1 (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 | 21% |
| 50 to 70 | Low: treat with caution | 11% |
| 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. Interacts with VRK1; the interaction is mediated by the nucleosome acidic patch, a cluster of negatively charged residues of H2A and H2B forming a cleft within the nucleosome core…
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6ACO | X-ray | 1.71 Å | B=118-124 |
| 7R5R | EM | 2.44 Å | D/H=1-126 |
| 8OX0 | EM | 2.52 Å | D/H=1-126 |
| 9Y46 | EM | 2.59 Å | D/H=2-126 |
| 10XZ | EM | 2.6 Å | D/H=2-126 |
| 7PII | EM | 2.68 Å | D/H=1-126 |
| 7U46 | EM | 2.68 Å | D/H=1-126 |
| 10YA | EM | 2.7 Å | D/H=2-126 |
| 10YC | EM | 2.7 Å | D/H=2-126 |
| 8OOP | EM | 2.7 Å | P=2-126 |
| 8OX1 | EM | 2.7 Å | D/H=1-126 |
| 9Y47 | EM | 2.74 Å | D/H=2-126 |
| 10YB | EM | 2.8 Å | D/H=2-126 |
| 10YD | EM | 2.8 Å | D/H=2-126 |
| 8OO7 | EM | 2.8 Å | P=2-126 |
| 5GT0 | X-ray | 2.82 Å | D/H=2-126 |
| 6X59 | EM | 2.98 Å | D/H=3-126 |
| 7TAN | EM | 3.0 Å | D/H=2-126 |
| 8VWU | EM | 3.0 Å | D/H=2-126 |
| 6SEG | EM | 3.1 Å | D/H=1-126 |
Showing 20 of 74 experimental structures (best resolution first).
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