Histone H3.3C (H3-5) is a 135-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q6NXT2.
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The mean pLDDT of this model is 85.7 (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 | 67% |
| 70 to 90 | Confident: backbone generally right | 6% |
| 50 to 70 | Low: treat with caution | 26% |
| Below 50 | Very low: often disordered regions | 1% |
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. Hominid-specific H3.5/H3F3C preferentially colocalizes with euchromatin, and it is associated with actively transcribed genes
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 |
|---|---|---|---|
| 8T4R | X-ray | 1.2 Å | D=2-14 |
| 8VLF | X-ray | 1.34 Å | P/T=2-13 |
| 2PUY | X-ray | 1.43 Å | E=2-11 |
| 9C0O | X-ray | 1.53 Å | D=2-16 |
| 6OI3 | X-ray | 1.66 Å | B=2-22 |
| 9DZN | X-ray | 1.72 Å | C=6-24 |
| 7TRL | X-ray | 1.74 Å | B=2-13 |
| 5I3L | X-ray | 1.85 Å | C=2-21 |
| 8VLD | X-ray | 1.92 Å | P/T=2-12 |
| 5BWN | X-ray | 1.94 Å | B=6-14 |
| 3KV4 | X-ray | 2.19 Å | B=2-25 |
| 7W67 | X-ray | 2.19 Å | M=2-10 |
| 8SR6 | X-ray | 2.22 Å | B=4-18 |
| 7W6L | X-ray | 2.26 Å | M=2-10 |
| 5BWO | X-ray | 2.38 Å | B=6-14 |
| 5F6K | X-ray | 2.41 Å | M=2-10 |
| 7W6I | X-ray | 2.56 Å | B=2-10 |
| 8Q1G | X-ray | 2.6 Å | C=2-22 |
| 7W6J | X-ray | 2.68 Å | B=2-10 |
| 9IM4 | X-ray | 2.79 Å | C/P=2-11 |
Showing 20 of 33 experimental structures (best resolution first).
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