Lysosome-associated membrane glycoprotein 1 (LAMP1) is a 417-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P11279.
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The mean pLDDT of this model is 86.4 (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 | 68% |
| 70 to 90 | Confident: backbone generally right | 18% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 6% |
What pLDDT means and how to read it
Lysosomal membrane glycoprotein which plays an important role in lysosome biogenesis, lysosomal pH regulation, autophagy and cholesterol homeostasis (PubMed:37390818). Acts as an important regulator of lysosomal lumen pH regulation by acting as a direct inhibitor of the proton channel TMEM175, facilitating lysosomal acidification for optimal hydrolase activity (PubMed:37390818). Also plays an important role in NK-cells cytotoxicity (PubMed:2022921, PubMed:23632890). Mechanistically, participates in cytotoxic granule movement to the cell surface and perforin trafficking to the lytic granule (PubMed:23632890). In addition, protects NK-cells from degranulation-associated damage induced by…
Interacts with ABCB9; this interaction strongly stabilizes ABCB9 and protects ABCB9 against lysosomal degradation (PubMed:22641697). Interacts with FURIN (PubMed:32295904). Interacts with TMEM175; inhibiting the proton channel activity of TMEM175 (PubMed:37390818). Interacts with UBAC2; interaction increases upon the activation of starvation-induced autophagy (PubMed:39284914)
Lysosome membrane, Endosome membrane, Late endosome membrane, Cell membrane, Cytolytic granule membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 8ATH | X-ray | 2.37 Å | A/B=29-195 |
| 8FY5 | EM | 3.4 Å | C/D=1-417 |
| 8FYF | EM | 3.4 Å | C/D=1-417 |
| 9C5A | EM | 4.2 Å | Y/y=406-417 |
| 9C59 | EM | 4.3 Å | Y/y=406-417 |
| 9C5B | EM | 4.5 Å | Y=406-417 |
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