Table 1.
Constraints and parameters utilized to model and simulate the LAPD-model of MHC1-mediated export of high affinity peptides.
| S. No. | Name | Parameter | Quantity |
|---|---|---|---|
| 1 | Range of numerical values utilized for disassociation constants | Kd | [10−6,1.00] |
| 2 | Proportion of empirically observed MHC1 | ≈5.00 | |
| 3 | Fold difference between low- and high-affinity peptides | ≈5.00 | |
| 4 | Rate limiting step (shunt reaction) | k18 | 30 − 35 mol L−1 s−1 |
| 5 | Total number of reactions | RXN | 30 |
| Total number of forward reactions | RXNf | 15 | |
| Total number of backward reactions | RXNb | 15 | |
| 6 | Index of molecular entity | i | 18 |
| 7 | Number of in silico experiments | j | 3 |
| 8 | Number of independent runs or observations | h | 30 |
| 9 | Number of molecules of an entity per in silico experiment in an independent run or observation | yijh | — |
| 10 | Wall time of each independent run or observation | — | 600 s |
| 11 | Time units | tf | 100 |
| 12 | Degree of freedom | df | 28 |
| 13 | Simulation time to assess temporal variation of molecular entity | t | [60 s,900 s] |