Histone H2A.Z (HTZ1) is a 134-residue protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q12692.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 86.4 (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 | 72% |
| 70 to 90 | Confident: backbone generally right | 8% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 11% |
What pLDDT means and how to read it
Variant histone H2A which can replace H2A in some nucleosomes. 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. This variant is enriched at promoters, it may keep them in a repressed state until the appropriate activation signal is received (PubMed:11000274, PubMed:11081628, PubMed:11090616, PubMed:11509669, PubMed:12628191,…
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 (Probable). The octamer wraps approximately 147 bp of DNA. H2A or its variant H2A.Z forms a heterodimer with H2B. H2A.Z associates with the VPS72/SWC2 subunit of the SWR1 chromatin remodeling complex. Also interacts with RBP1/DNA-directed RNA…
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6AE8 | X-ray | 1.65 Å | A/B=23-119 |
| 4M6B | X-ray | 1.78 Å | A/D=23-119 |
| 5J9Q | X-ray | 3.25 Å | L/M/O=12-21 |
| 8QZ0 | EM | 3.8 Å | L=1-134 |
| 8X2X | EM | 3.8 Å | C/G=1-134 |
| 8X2Z | EM | 3.9 Å | C/G=1-134 |
| 8X2Y | EM | 4.1 Å | C/G=1-134 |
| 8X30 | EM | 4.3 Å | C/G=1-134 |
| 8X32 | EM | 4.4 Å | C/G=1-134 |
| 8X31 | EM | 6.2 Å | C/G=1-134 |
| 2JSS | NMR | A=23-119 |
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.