Lysine-specific demethylase PHF2 (PHF2) is a 1096-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: O75151.
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The mean pLDDT of this model is 61.4 (low 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 | 33% |
| 70 to 90 | Confident: backbone generally right | 8% |
| 50 to 70 | Low: treat with caution | 5% |
| Below 50 | Very low: often disordered regions | 54% |
What pLDDT means and how to read it
Lysine demethylase that demethylates both histones and non-histone proteins (PubMed:20129925, PubMed:21167174, PubMed:21532585). Enzymatically inactive by itself, and becomes active following phosphorylation by PKA: forms a complex with ARID5B and mediates demethylation of methylated ARID5B (PubMed:21532585). Demethylation of ARID5B leads to target the PHF2-ARID5B complex to target promoters, where PHF2 mediates demethylation of dimethylated 'Lys-9' of histone H3 (H3K9me2), followed by transcription activation of target genes (PubMed:21532585). The PHF2-ARID5B complex acts as a coactivator of HNF4A in liver. PHF2 is recruited to trimethylated 'Lys-4' of histone H3 (H3K4me3) at rDNA…
Component of the PHF2-ARID5B complex, at least composed of PHF2 and ARID5B (PubMed:21532585). Interacts with HNF4A and NR1H4 (PubMed:21532585). Interacts with RELA (By similarity)
Nucleus, nucleolus, Chromosome, centromere, kinetochore
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7M10 | X-ray | 1.15 Å | A=1-70 |
| 3KQI | X-ray | 1.78 Å | A=1-70 |
| 3PUA | X-ray | 1.89 Å | A=60-451 |
| 3PU8 | X-ray | 1.94 Å | A/B=60-451 |
| 3PTR | X-ray | 1.95 Å | B=60-451 |
| 3PU3 | X-ray | 1.95 Å | A/B=60-451 |
| 3PUS | X-ray | 2.08 Å | A/B=60-451 |
| 8F8Y | X-ray | 3.06 Å | A/B=1-451 |
| 8F8Z | X-ray | 3.3 Å | A/B=1-451 |
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