Histone H2A.1 (HTA1) is a 132-residue protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P04911.
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The mean pLDDT of this model is 89.4 (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 | 78% |
| 70 to 90 | Confident: backbone generally right | 5% |
| 50 to 70 | Low: treat with caution | 16% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
Core component of nucleosome which plays a central role in DNA double strand break (DSB) repair. 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 |
|---|---|---|---|
| 4WNN | X-ray | 1.8 Å | A/C/E/G=1-132 |
| 3T7K | X-ray | 2.03 Å | C/D=125-132 |
| 7DLX | X-ray | 2.4 Å | A/B/C/D/E/F/G/H=2-113 |
| 5BT1 | X-ray | 2.62 Å | C=1-132 |
| 9C9G | EM | 2.91 Å | C/G=1-132 |
| 9C9S | EM | 3.09 Å | C/G=1-132 |
| 1ID3 | X-ray | 3.1 Å | C/G=2-132 |
| 7K78 | EM | 3.1 Å | C/G=1-132 |
| 9C9T | EM | 3.16 Å | C/G=1-132 |
| 7SSA | EM | 3.2 Å | C/G=2-132 |
| 9OB1 | EM | 3.2 Å | C/G=1-132 |
| 7ON1 | EM | 3.35 Å | c/g=1-132 |
| 8OW0 | EM | 3.4 Å | c/g=1-132 |
| 8QYV | EM | 3.5 Å | E=1-132 |
| 6GEJ | EM | 3.6 Å | E/F=1-132 |
| 6GEN | EM | 3.6 Å | E/F=1-132 |
| 8OW1 | EM | 3.7 Å | c/g=1-132 |
| 8XGC | EM | 3.7 Å | P=1-132 |
| 8QZ0 | EM | 3.8 Å | E=1-132 |
| 9CB7 | EM | 4.04 Å | C/G=1-132 |
Showing 20 of 25 experimental structures (best resolution first).
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