Ribosomal oxygenase 1 (RIOX1) is a 641-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9H6W3.
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The mean pLDDT of this model is 79.9 (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 | 70% |
| 70 to 90 | Confident: backbone generally right | 2% |
| 50 to 70 | Low: treat with caution | 0% |
| Below 50 | Very low: often disordered regions | 28% |
What pLDDT means and how to read it
Oxygenase that can act as both a histone lysine demethylase and a ribosomal histidine hydroxylase (PubMed:23103944). Specifically demethylates 'Lys-4' (H3K4me) and 'Lys-36' (H3K36me) of histone H3, thereby playing a central role in histone code (By similarity). Preferentially demethylates trimethylated H3 'Lys-4' (H3K4me3) and monomethylated H3 'Lys-4' (H3K4me1) residues, while it has weaker activity for dimethylated H3 'Lys-36' (H3K36me2) (By similarity). Acts as a regulator of osteoblast differentiation via its interaction with SP7/OSX by demethylating H3K4me and H3K36me, thereby inhibiting SP7/OSX-mediated promoter activation (By similarity). Also catalyzes demethylation of non-histone…
Interacts with SP7/OSX; the interaction is direct (By similarity). Interacts with MYC (PubMed:17308053). Interacts with PHF19; leading to its recruitment to H3K36me3 sites (PubMed:23160351)
Nucleus, nucleolus, Nucleus, nucleoplasm
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4CCJ | X-ray | 2.15 Å | A/B/C/D=183-641 |
| 4CCK | X-ray | 2.15 Å | A/B/C/D=183-641 |
| 4Y3O | X-ray | 2.2 Å | A/B=176-641 |
| 4CCN | X-ray | 2.23 Å | A/B=183-641 |
| 4E4H | X-ray | 2.28 Å | A/B/C/D=183-641 |
| 4CCO | X-ray | 2.3 Å | A/B=183-641 |
| 4DIQ | X-ray | 2.4 Å | A/B=167-641 |
| 4CCM | X-ray | 2.51 Å | A/B=183-641 |
| 4Y33 | X-ray | 2.7 Å | A/B/C/D=176-641 |
| 4Y4R | X-ray | 3.3 Å | A/B=176-525, A/B=541-641 |
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