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Cleavage specificities reported for some of the most commonly used proteases in bottom‐up proteomics 9, 10, 13, 14, 15, 16. Xnp indicates any amino acid except proline.
| Protease | Cleavage site (↓) | Optimal pH | Max proteome coverage |
|---|---|---|---|
| AspN | ↓D | 8 | 78% |
| LysargiNase | ↓K/R | 7.5 | 87% |
| LysC | K↓Xnp | 8 | 79% |
| LysN | ↓KXnp | 8 | 78% |
| ArgC | R↓Xnp | 8 | 82% |
| GluC | E↓ | 8 | 86% |
| Chymotrypsin | F/W/Y↓ | 8 | 87% |
| Trypsin | K/R↓Xnp | 8–9 | 87% |
| Sap‐9 | K/R↓Xnp | 6–7 | 87% |
