Figure 4

Schematic diagram of the multi-factor model for caspase substrate prediction. Step1: A window scans the entire protein (example used: 14-3-3, Uniprot ID: P31946) for potential caspase cleavage sites (bold, underlined, P1 residue to the left of inverted triangle) using a caspase cleavage site prediction tool (example used: a 24 residue scanning window from CASVM). Step 2: 24-mer subsequences containing predicted cleavage sites with flanking ten residues downstream and upstream from the tetrapeptide sequence (P14 to P10') are constructed. Cp, Sp and P-score are calculated for all subsequences. Cleavage sites in subsequences with P-score above the assigned cut-off are selected.