Histone H3.1 (H3c1) is a 136-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P68433.
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The mean pLDDT of this model is 85.8 (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 | 4% |
| 50 to 70 | Low: treat with caution | 26% |
| Below 50 | Very low: often disordered regions | 2% |
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 TONSL; CHAF1A; CHAF1B; MCM2 and DNAJC9 (By similarity). Interacts with NASP; NASP is a histone chaperone that stabilizes and maintains a soluble pool of Histone H3-H4 dimers (By…
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7QPH | X-ray | 1.9 Å | E/F/G/H=23-32 |
| 7QRD | X-ray | 2.0 Å | L/M=11-26 |
| 2WP1 | X-ray | 2.1 Å | P/Q=15-24 |
| 2W5Z | X-ray | 2.2 Å | C=2-9 |
| 5B1M | X-ray | 2.34 Å | A/E=1-136 |
| 5B1L | X-ray | 2.35 Å | A/E=1-136 |
| 2V83 | X-ray | 2.4 Å | D/E=2-10 |
| 4EZH | X-ray | 2.52 Å | C/D=25-35 |
| 7OS4 | X-ray | 2.54 Å | E/F/G/H=14-32 |
| 5IX1 | X-ray | 2.6 Å | P/Q=2-16 |
| 2XL3 | X-ray | 2.7 Å | D/F=2-9 |
| 5IX2 | X-ray | 2.9 Å | P/Q=2-33 |
| 1U35 | X-ray | 3.0 Å | A/E=1-136 |
| 7VFI | EM | 3.98 Å | C=53-61 |
| 1GUW | NMR | B=2-17 |
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