Core histone macro-H2A.1 (MACROH2A1) is a 369-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: O75367.
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The mean pLDDT of this model is 82.9 (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 | 10% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 18% |
What pLDDT means and how to read it
Variant histone H2A which replaces conventional H2A in a subset of nucleosomes where it represses transcription (PubMed:12718888, PubMed:15621527, PubMed:16428466). Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template (PubMed:15897469). Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability (PubMed:15897469). DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. Involved in stable X chromosome inactivation (PubMed:15897469). Inhibits the binding of…
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. Interacts with HDAC1 and HDAC2 (PubMed:16107708). Interacts with SPOP (PubMed:15897469, PubMed:19818708). Part of a complex consisting of MACROH2A1, CUL3 and SPOP (PubMed:15897469, PubMed:19818708)
Nucleus, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3HSV | X-ray | 1.43 Å | M=171-186 |
| 1ZR3 | X-ray | 1.66 Å | A/B/C/D=162-369 |
| 3IVB | X-ray | 1.75 Å | M=167-181 |
| 3IID | X-ray | 1.9 Å | A=162-369 |
| 3IIF | X-ray | 2.1 Å | A/B/C=162-369 |
| 5IIT | X-ray | 2.13 Å | A/B/C/D=181-366 |
| 3HQH | X-ray | 2.3 Å | M=167-181 |
| 2FXK | X-ray | 2.54 Å | A/B=162-369 |
| 2F8N | X-ray | 2.9 Å | G=1-120 |
| 1ZR5 | X-ray | 2.92 Å | A/B=161-369 |
| 1U35 | X-ray | 3.0 Å | C/G=1-120 |
| 7D3Y | X-ray | 3.11 Å | A/B=181-369 |
| 5LNC | X-ray | 3.29 Å | A/B=182-366 |
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