Hirudin-2 is a 65-residue protein from Hirudo medicinalis. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P28504.
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 | 66% |
| 70 to 90 | Confident: backbone generally right | 26% |
| 50 to 70 | Low: treat with caution | 8% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
Hirudin is a potent thrombin-specific protease inhibitor. It forms a stable non-covalent complex with alpha-thrombin, thereby abolishing its ability to cleave fibrinogen
Secreted
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3VXE | X-ray | 1.25 Å | J=48-64 |
| 1C5L | X-ray | 1.47 Å | I=55-64 |
| 1C5N | X-ray | 1.5 Å | I=55-64 |
| 1O2G | X-ray | 1.58 Å | I=55-65 |
| 3VXF | Other | 1.6 Å | J=48-64 |
| 1GHX | X-ray | 1.65 Å | I=55-65 |
| 6ZUH | X-ray | 1.7 Å | I=54-64 |
| 6ZV8 | X-ray | 1.7 Å | I=54-64 |
| 1GJ5 | X-ray | 1.73 Å | I=55-65 |
| 1C1U | X-ray | 1.75 Å | I=55-65 |
| 1GHW | X-ray | 1.75 Å | I=55-65 |
| 1YPJ | X-ray | 1.78 Å | I=55-64 |
| 1YPK | X-ray | 1.78 Å | I=55-64 |
| 6ZUN | X-ray | 1.79 Å | I=54-64 |
| 1A3B | X-ray | 1.8 Å | I=49-64 |
| 1NM6 | X-ray | 1.8 Å | B=55-65 |
| 1QBV | X-ray | 1.8 Å | E=55-65 |
| 1YPG | X-ray | 1.8 Å | I=55-64 |
| 6ZUG | X-ray | 1.8 Å | I=54-64 |
| 1GJ4 | X-ray | 1.81 Å | I=55-65 |
Showing 20 of 52 experimental structures (best resolution first).
MolViewer loads the AlphaFold model straight from AlphaFold DB into your browser. Show it as a cartoon, color by pLDDT, measure distances and angles, and load a PDB structure next to it to compare.