72 kDa type IV collagenase (MMP2) is a 660-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P08253.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 89.8 (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 | 77% |
| 70 to 90 | Confident: backbone generally right | 15% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 6% |
What pLDDT means and how to read it
Ubiquitinous metalloproteinase that is involved in diverse functions such as remodeling of the vasculature, angiogenesis, tissue repair, tumor invasion, inflammation, and atherosclerotic plaque rupture. As well as degrading extracellular matrix proteins, can also act on several nonmatrix proteins such as big endothelial 1 and beta-type CGRP promoting vasoconstriction. Also cleaves KISS at a Gly-|-Leu bond. Appears to have a role in myocardial cell death pathways. Contributes to myocardial oxidative stress by regulating the activity of GSK3beta. Cleaves GSK3beta in vitro. Involved in the formation of the fibrovascular tissues in association with MMP14
Interacts (via the C-terminal hemopexin-like domains-containing region) with the integrin alpha-V/beta-3; the interaction promotes vascular invasion in angiogenic vessels and melamoma cells. Interacts (via the C-terminal PEX domain) with TIMP2 (via the C-terminal); the interaction inhibits the degradation activity. Interacts with GSK3B
Secreted, extracellular space, extracellular matrix, Membrane, Nucleus, Cytoplasm, Mitochondrion
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3AYU | X-ray | 2.0 Å | A=110-450 |
| 7XJO | X-ray | 2.0 Å | A/B=110-450 |
| 1GEN | X-ray | 2.15 Å | A=443-660 |
| 8H78 | X-ray | 2.4 Å | A/B=110-450 |
| 1RTG | X-ray | 2.6 Å | A=451-660 |
| 1EAK | X-ray | 2.66 Å | A/B/C/D=32-452 |
| 1CK7 | X-ray | 2.8 Å | A=30-660 |
| 1QIB | X-ray | 2.8 Å | A=115-213, A=394-449 |
| 7XGJ | X-ray | 2.8 Å | A/B/C=110-450 |
| 1GXD | X-ray | 3.1 Å | A/B=30-660 |
| 1CXW | NMR | A=278-336 | |
| 1HOV | NMR | A=110-214 | |
| 1J7M | NMR | A=337-394 | |
| 1KS0 | NMR | A=223-282 |
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