Histone H3.1t (H3-4) is a 136-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q16695.
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The mean pLDDT of this model is 86.1 (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 | 5% |
| 50 to 70 | Low: treat with caution | 25% |
| 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 and CHAF1B (PubMed:33857403)
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6WAU | X-ray | 1.75 Å | G/H/I/J/K/L=22-33 |
| 6WAT | X-ray | 1.8 Å | A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P/Q/R/S/T/V/Y/Z/a/b/c/d/e/f/g=22-30 |
| 4V2W | X-ray | 1.81 Å | C=17-36 |
| 3T6R | X-ray | 1.95 Å | D=2-8 |
| 4V2V | X-ray | 2.0 Å | C/D=26-30 |
| 2YBP | X-ray | 2.02 Å | C/D=31-42 |
| 6OIE | X-ray | 2.08 Å | C/D=2-20 |
| 2YBS | X-ray | 2.32 Å | C/D=31-42 |
| 3A6N | X-ray | 2.7 Å | A/E=1-136 |
| 8Z50 | X-ray | 2.8 Å | B=1-136 |
| 2V1D | X-ray | 3.1 Å | C=2-22 |
| 8VMI | EM | 3.1 Å | I=26-43 |
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