Stromelysin-1 (MMP3) is a 477-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P08254.
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The mean pLDDT of this model is 85.7 (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 | 58% |
| 70 to 90 | Confident: backbone generally right | 27% |
| 50 to 70 | Low: treat with caution | 9% |
| Below 50 | Very low: often disordered regions | 6% |
What pLDDT means and how to read it
Metalloproteinase with a rather broad substrate specificity that can degrade fibronectin, laminin, gelatins of type I, III, IV, and V; collagens III, IV, X, and IX, and cartilage proteoglycans. Activates different molecules including growth factors, plasminogen or other matrix metalloproteinases such as MMP9 (PubMed:11029580, PubMed:1371271). Once released into the extracellular matrix (ECM), the inactive pro-enzyme is activated by the plasmin cascade signaling pathway (PubMed:2383557). Also acts intracellularly (PubMed:22265821). For example, in dopaminergic neurons, gets activated by the serine protease HTRA2 upon stress and plays a pivotal role in DA neuronal degeneration by mediating…
Secreted, extracellular space, extracellular matrix, Nucleus, Cytoplasm
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1HY7 | X-ray | 1.5 Å | A/B=100-272 |
| 1CIZ | X-ray | 1.64 Å | A=100-267 |
| 1HFS | X-ray | 1.7 Å | A=105-264 |
| 1CAQ | X-ray | 1.8 Å | A=100-267 |
| 1USN | X-ray | 1.8 Å | A=100-264 |
| 1C3I | X-ray | 1.83 Å | A/B=100-272 |
| 4G9L | X-ray | 1.88 Å | A/B=100-272 |
| 1G49 | X-ray | 1.9 Å | A/B=100-272 |
| 1SLM | X-ray | 1.9 Å | A=18-272 |
| 4DPE | X-ray | 1.96 Å | A/B=100-272 |
| 4JA1 | X-ray | 1.96 Å | A/B=100-272 |
| 1B8Y | X-ray | 2.0 Å | A=100-266 |
| 1CQR | X-ray | 2.0 Å | A/B=100-272 |
| 1D7X | X-ray | 2.0 Å | A/B=100-272 |
| 1G4K | X-ray | 2.0 Å | A/B/C=100-267 |
| 1QIA | X-ray | 2.0 Å | A/B/C/D=106-267 |
| 1QIC | X-ray | 2.0 Å | A/B/C/D=106-266 |
| 2D1O | X-ray | 2.02 Å | A/B=100-270 |
| 2USN | X-ray | 2.2 Å | A=100-264 |
| 1SLN | X-ray | 2.27 Å | A=100-272 |
Showing 20 of 44 experimental structures (best resolution first).
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