Sorting nexin-5 (SNX5) is a 404-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9Y5X3.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 87.0 (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 | 72% |
| 70 to 90 | Confident: backbone generally right | 15% |
| 50 to 70 | Low: treat with caution | 5% |
| Below 50 | Very low: often disordered regions | 9% |
What pLDDT means and how to read it
Involved in several stages of intracellular trafficking. Interacts with membranes containing phosphatidylinositol 3-phosphate (PtdIns(3P)) or phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4)P2) (PubMed:15561769). Acts in part as component of the retromer membrane-deforming SNX-BAR subcomplex. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX-BAR subcomplex functions to deform the donor membrane into a tubular profile called endosome-to-TGN transport carrier (ETC) (Probable). Does not have in vitro vesicle-to-membrane remodeling…
Forms heterodimers with BAR domain-containing sorting nexins SNX1 and SNX2; does not homodimerize (PubMed:23085988). Interacts with SNX32 (PubMed:39073202). The heterodimers are proposed to self-assemble into helical arrays on the membrane to stabilize and expand local membrane curvature underlying endosomal tubule formation. Thought to be a component of the originally described retromer complex…
Endosome, Early endosome, Early endosome membrane, Cell membrane, Cytoplasmic vesicle membrane, Cytoplasm, Cell projection, phagocytic cup, Cell projection, ruffle
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 5WY2 | X-ray | 1.9 Å | A/C=20-180 |
| 5TGI | X-ray | 1.98 Å | A/B=22-170 |
| 6N5X | X-ray | 2.05 Å | A=22-170 |
| 6N5Y | X-ray | 2.26 Å | A=22-170 |
| 9IAE | X-ray | 2.3 Å | A=25-170 |
| 9IGY | X-ray | 2.3 Å | A/B/C/D=25-170 |
| 1SYS | X-ray | 2.4 Å | C=257-265 |
| 6N5Z | X-ray | 2.45 Å | A/B=22-170 |
| 8A1G | X-ray | 2.5 Å | C/D=195-404 |
| 5TGJ | X-ray | 2.6 Å | A/C=22-170 |
| 5TGH | X-ray | 2.8 Å | A/C/E/G=22-170 |
| 8ABQ | X-ray | 2.81 Å | C/D=195-404 |
| 8AFZ | EM | 10.0 Å | B=1-404 |
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.