Gag polyprotein (gag) is a 513-residue protein from Simian immunodeficiency virus agm.grivet. This is its AlphaFold structure prediction, created 3 Jul 2025. UniProt accession: Q02843.
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The mean pLDDT of this model is 77.1 (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 | 41% |
| 70 to 90 | Confident: backbone generally right | 32% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 18% |
What pLDDT means and how to read it
Matrix protein p17 targets Gag and Gag-Pol polyproteins to the plasma membrane via a multipartite membrane binding signal, that includes its myristoylated N-terminus. Also mediates nuclear localization of the preintegration complex. Implicated in the release from host cell mediated by Vpu (By similarity)
Homotrimer. Interacts with gp41 (via C-terminus)
Virion, Host nucleus, Host cytoplasm, Host cell membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 2XS8 | X-ray | 2.5 Å | B=467-481 |
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