Vacuolar protein sorting-associated protein 35 (VPS35) is a 796-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q96QK1.
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The mean pLDDT of this model is 91.3 (very high 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 | 74% |
| 70 to 90 | Confident: backbone generally right | 23% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
Acts as a component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The CSC seems to associate with the cytoplasmic domain of cargo proteins predominantly via VPS35; however, these interactions seem to be of low affinity and retromer SNX proteins may also contribute to cargo selectivity thus questioning the classical function of the CSC. The SNX-BAR retromer mediates retrograde transport of cargo…
Component of the heterotrimeric retromer cargo-selective complex (CSC), also decribed as vacuolar protein sorting subcomplex (VPS), formed by VPS26 (VPS26A or VPS26B), VPS29 and VPS35 (PubMed:11102511, PubMed:28892079). The CSC has a highly elongated structure with VPS26 and VPS29 binding independently at opposite distal ends of VPS35 as central platform (By similarity). The CSC is believed to…
Cytoplasm, Membrane, Endosome, Early endosome, Late endosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8R0J | X-ray | 2.4 Å | C/D=476-780 |
| 8R02 | X-ray | 2.5 Å | C/D=476-780 |
| 5OSI | X-ray | 2.52 Å | B/E/H/K=471-781 |
| 5F0J | X-ray | 2.7 Å | A=14-470 |
| 5F0P | X-ray | 2.78 Å | A=14-470 |
| 2R17 | X-ray | 2.8 Å | C/D=483-780 |
| 5F0K | X-ray | 3.07 Å | A/B/C/D/E=14-470 |
| 5F0M | X-ray | 3.1 Å | A=14-470 |
| 8RKS | X-ray | 3.1 Å | B/D/F/H=471-781 |
| 5F0L | X-ray | 3.2 Å | A=14-470 |
| 5OSH | X-ray | 4.3 Å | B/E/H/K=482-780 |
| 7BLN | EM | 8.9 Å | A/C=1-796 |
| 7BLO | EM | 9.5 Å | A/C=12-363 |
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