Table 1.
List of mathematical model parameters
The table and the meaning of the parameters have been previously published by Liepe et al. (11), and they correspond to the parameters indicated in Fig. 1A.
| Peptide-bond hydrolysis | |
| kp | Peptide-bond hydrolysis rate at active site(s) |
| KaS, KaP | Dissociation constant of substrate (S) and product (P) to active site(s) |
| na | Hill coefficient for binding to active site(s) |
| KiS and KiP | Dissociation constant of substrate (S) and product (P) to inhibitor site(s) |
| ni | Hill coefficient for binding to inhibitor site(s) |
| α | Factor, by which KaS, KaP, KiS, and KiP are multiplied |
| β | Factor, by which kp is multiplied upon binding to inhibitory site(s) |
| Transport | |
| kon | Association rate to the gate |
| koff | Dissociation rate to from gate |
| vin | Peptide influx rate |
| τ | Peptide translocation rate inside the chamber |
| vout | Peptide efflux rate |
| C | Capacity (maximum number of molecules inside the chamber) |
| Transport regulation | |
| Ron | Binding rate to the enhancing regulator site(s) |
| Roff | Unbinding rate to the enhancing regulator site(s) |
| Xenh | Strength of enhancing regulator site(s) |
| Ion | Binding rate to the inhibiting regulator site(s) outside the chamber |
| Ioff | Unbinding rate to the inhibiting regulator site(s) outside the chamber |
| H | Coefficient for binding to inhibiting regulator site(s) outside the chamber |
| Yin | Strength of inhibiting regulator site(s) |