E3 ubiquitin-protein ligase ZNRF3 (ZNRF3) is a 936-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9ULT6.
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The mean pLDDT of this model is 50.7 (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 | 10% |
| 70 to 90 | Confident: backbone generally right | 16% |
| 50 to 70 | Low: treat with caution | 6% |
| Below 50 | Very low: often disordered regions | 68% |
What pLDDT means and how to read it
E3 ubiquitin-protein ligase that acts as a negative regulator of the Wnt signaling pathway by mediating the ubiquitination and subsequent degradation of Wnt receptor complex components Frizzled and LRP6. Acts on both canonical and non-canonical Wnt signaling pathway. Acts as a tumor suppressor in the intestinal stem cell zone by inhibiting the Wnt signaling pathway, thereby restricting the size of the intestinal stem cell zone (PubMed:22575959). Along with RSPO2 and RNF43, constitutes a master switch that governs limb specification (By similarity)
Interacts with LRP6, FZD4, FZD5, FZD6 and FZD8 (PubMed:22575959). Interacts with RSPO1; interaction promotes indirect interaction with LGR4 and membrane clearance of ZNRF3 (PubMed:22575959). Also interacts with RSPO2 (PubMed:29769720). Interacts with LMBR1L (PubMed:31073040)
Cell membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8G4Y | X-ray | 1.41 Å | A=56-220 |
| 8XFS | EM | 3.2 Å | C/E=56-245 |
| 8XFP | EM | 3.21 Å | C/H=1-936 |
| 8XFT | EM | 3.24 Å | C=1-936 |
| 9KB8 | EM | 3.25 Å | B/D=56-267 |
| 8Y69 | EM | 3.38 Å | C/H=56-243 |
| 9KB9 | EM | 3.59 Å | C/E=56-267 |
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