Pygopus homolog 1 (PYGO1) is a 419-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9Y3Y4.
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The mean pLDDT of this model is 55.0 (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 | 14% |
| 70 to 90 | Confident: backbone generally right | 2% |
| 50 to 70 | Low: treat with caution | 25% |
| Below 50 | Very low: often disordered regions | 59% |
What pLDDT means and how to read it
Involved in signal transduction through the Wnt pathway
Interacts with BCL9 via The PHD-type zinc finger motiv, and thereby becomes part of the nuclear beta-catenin/TCF complex. Identified in a complex with BCL9L, CDC73, CTNNB1 and PYGO1. Interacts with histone H3 mono-, di- or tri-methylated at 'Lys4' (H3K4me1, H3K4me2, H3K4me3); the interaction is enhanced by the interaction with BCL9
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 2VPB | X-ray | 1.59 Å | A=333-397 |
| 2VPG | X-ray | 1.6 Å | A/C=340-398 |
| 2VP7 | X-ray | 1.65 Å | A=333-402 |
| 2VPE | X-ray | 1.7 Å | A/C=340-398 |
| 2VPD | X-ray | 2.77 Å | A/C=333-398 |
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