Table 3.
Interacting agents, rule execution probabilities, and behavior
| Rules | Interacting agents | Probability | Resulting action |
|---|---|---|---|
| bind |
Repressor-Promoter |
0.5 |
Repressor + Promoter |
| |
DegU-Promoter |
0.5 |
DegU + Promoter |
| |
ComX-Promoter |
0.5 |
ComX + Promoter |
| |
ComK-Promoter |
0.5 |
ComK + Promoter |
| |
ComK-Promoter-DegU |
0.8 |
ComK + Promoter + DegU |
| |
ComK-ComK |
0.8 |
ComK + ComK |
| |
Ribosome-mRNA |
0.9 |
Ribosome + mRNA |
| |
ClpC/ClpP + MecA-ComK |
0.6 |
ClpC/ClpP + MecA + ComK |
| |
ClpC/ClpP + MecA-ComS |
0.7 |
ClpC/ClpP + MecA + ComS |
| |
ClpP/ClpC-MecA |
0.5 |
ClpC/ClpP + MecA |
| consumePeptide |
Cell |
0.8 |
New ComX |
| death |
mRNA |
0.0001 |
Remove mRNA |
| |
ClpC/ClpP + MecA + ComK/ComS |
0.5 |
Remove ComK or Remove ComS |
| |
Cell |
0.0001 |
Remove Cell |
| dissociation |
Repressor |
0.0001 |
Repressor-Promoter |
| |
DegU |
0.0001 |
DegU-Promoter |
| generatePeptide |
Cell |
0.8 |
|
| Life |
Cell |
0.8 |
New Cell if not starving |
| |
Cell |
0.0001 |
Remove Repressor if starving |
| Move |
Cell |
0.5 |
chemotaxis |
| Move |
ComK, ComS, ComX, DegU, MecA, ClpC/ClpP, mRNA, Ribosome, Repressor |
Random walk, see text |
|
| Shove |
Cell |
- |
|
| transcription |
Promoter |
0.0001 |
New mRNA |
| |
Promoter + ComK dimer |
0.001 |
New mRNA |
| |
Promoter + ComK tertramer |
0.5 |
New mRNA |
| |
Promoter + ComX |
0.5 |
New mRNA |
| translation | Ribosome + mRNA | 0.5 | New ComK or New ComS |
Agent-agent represents unbound neighboring agents, while agent + agent represents bound agents moving together.