Table 1 Species description, synthesis and degradation rates for the model equations
From: Construction and analysis of a modular model of caspase activation in apoptosis
| Species | Description | Synthesis rate (nM/s) | Degradation rate (s-1) |
|---|---|---|---|
| DISC | DISC | 8.807 × 10-3 | |
| Casp8 | procaspase-8 | adjusted | 6.5 × 10-5 [65] |
| Casp8* | caspase-8 | 9.667 × 10-5 [65] | |
| Casp3 | procaspase-3 | adjusted | 6.5 × 10-5 [65] |
| Casp3* | caspase-3 | 9.667 × 10-5 [65] | |
| XIAP | XIAP | adjusted | 1.933 × 10-4 [65] |
| Casp3*-XIAP | Casp3*-XIAP complex | 2.883 × 10-4 [65] | |
| BAR | BAR | 1.111 × 10-3 ([BAR]0 = 66.67 nM [65]) | 1.667 × 10-5 [65] |
| Casp8*-BAR | Casp8*-BAR complex | 1.933 × 10-4 [65] | |
| Bid | Bid | 4.168 × 10-4 ([Bid]0 = 25 nM [70, 71]) | 1.667 × 10-5 (μBAR) |
| tBid | truncated Bid | 1.667 × 10-5 (μBid) | |
| tBid-Bax2 | tBid-Bax2 complex | 0.0264 | |
| Cytc | cytochrome c (mitochondrial) | 10-3 ([Cytc]0 = 100 nM [70, 71]) | 10-5 |
| Cytc* | cytochrome c (cytosolic) | 10-5 | |
| Smac | Smac (mitochondrial) | 0.0167 ([Smac]0 = 100 nM [70, 71]) | 1.667 × 10-5 (μBAR) |
| Smac* | Smac (cytosolic) | 1.667 × 10-5 (μSmac) | |
| Smac*-XIAP | Smac-XIAP complex | 1.933 × 10-4 (μCasp8*-BAR) | |
| Apop | apoptosome | 1.487 × 10-5 | |
| Casp9 | procaspase-9 | 1.3 × 10-3 ([Casp9]0 = 20 nM [70, 71]) | 6.5 × 10-5 (μCasp8) |
| Casp9* | caspase-9 | 9.667 × 10-5 (μCasp8*) | |
| Casp9*-XIAP | Casp9*-XIAP complex | 2.883 × 10-4 (μCasp3*-XIAP) |