GATOR1 complex protein NPRL3 (NPRL3) is a 569-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q12980.
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The mean pLDDT of this model is 66.1 (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 | 0% |
| 70 to 90 | Confident: backbone generally right | 53% |
| 50 to 70 | Low: treat with caution | 26% |
| Below 50 | Very low: often disordered regions | 21% |
What pLDDT means and how to read it
As a component of the GATOR1 complex functions as an inhibitor of the amino acid-sensing branch of the mTORC1 pathway (PubMed:23723238, PubMed:29590090, PubMed:35338845). In response to amino acid depletion, the GATOR1 complex has GTPase activating protein (GAP) activity and strongly increases GTP hydrolysis by RagA/RRAGA (or RagB/RRAGB) within heterodimeric Rag complexes, thereby turning them into their inactive GDP-bound form, releasing mTORC1 from lysosomal surface and inhibiting mTORC1 signaling (PubMed:23723238, PubMed:29590090, PubMed:35338845). In the presence of abundant amino acids, the GATOR1 complex is negatively regulated by GATOR2, the other GATOR subcomplex, in this amino…
Within the GATOR complex, component of the GATOR1 subcomplex, made of DEPDC5, NPRL2 and NPRL3 (PubMed:23723238, PubMed:29590090, PubMed:35338845). GATOR1 mediates the strong interaction of the GATOR complex with small GTPases Rag (RagA/RRAGA, RagB/RRAGB, RagC/RRAGC and/or RagD/RRAGD) heterodimers (PubMed:23723238). GATOR1 interacts with GPR155/LYCHOS; interaction takes place in presence of…
Lysosome membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 9V0J | EM | 2.97 Å | B=1-569 |
| 8FW5 | EM | 3.08 Å | C=1-569 |
| 9O5A | EM | 3.2 Å | C=1-569 |
| 9O5D | EM | 3.34 Å | C=1-569 |
| 7T3B | EM | 3.9 Å | C=1-569 |
| 6CES | EM | 4.0 Å | M=1-569 |
| 7T3A | EM | 4.0 Å | C=1-569 |
| 7T3C | EM | 4.0 Å | C=1-569 |
| 6CET | EM | 4.4 Å | M=1-569 |
| 9O5E | EM | 5.0 Å | C/F=1-569 |
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