| Reaction | Propensity | Comments | ||||
|---|---|---|---|---|---|---|
| Lldr promoter | ||||||
| ø -> Lldr | 0.1 | Constant production of Lldr | ||||
| Lldr -> ø | 0.0001 | Constant degradation of Lldr relative to the creation of Lldr giving a molecule number of 1000. | ||||
| 2 Lldr -> Lldr2 | 3 | Dimerization of Lldr | ||||
| Lldr2 -> 2 Lldr | 100 | Undimerization of Lldr giving a majority of Lldr in dimer. | ||||
| Lldr2 -> Lldr | 0.0001 | Degradation of Lldr dimer. | ||||
| Lldr2 + Lact -> Lldr2Lact | 0.0001 | Binding of lactate to Lldr dimer. Lactate is notconsumed. | ||||
| Lldr2Lact -> Lldr2 | 1 | Unbinding of Lactate to dimer | ||||
| Lldr2Lact -> Lldr | 0.0001 | Degradation of Lldr in Lldr-Lactate complex | ||||
| Lldr2 + pLact -> pLactLldr2 | 1 | Binding of dimer to lld promoter | ||||
| pLactLldr2 -> Lldr2 + pLact | 0.1 | Unbinding of dimer to promoter | ||||
| pLactLldr2 -> Lldr + pLact | 0.0001 | Degradation of Lldr bound to prooter. | ||||
| pLactLldr2 + Lact -> pLactLldr2Lact + Lact | 0.0001 | Binding of lactate to promoter dimer complex. | ||||
| pLactLldr2Lact -> pLactLldr2 | 1 | Release of lactate from promoter dimer complex. | ||||
| pLactLldr2Lact -> pLactLldr2Lact + mLuxi | 0.005 | Transcription of activated promoter gives LuxI mRNA | ||||
| mLuxI -> ø | 0.0025 | Degradation of LuxI mRNA | ||||
| mLuxI -> mLuxI + LuxI | 0.0167 | Translation of LuxI mRNA | ||||
| LuxI -> ø | 0.0002814 | Degradation of LuxI | ||||
| Vgb promoter | ||||||
| ø -> FNR | 1 | Constant production of FNR | ||||
| FNR -> ø | 0.001 | Constant degradation of FNR | ||||
| ø -> ArcA | 1 | Constant production of ArcA | ||||
| ArcA -> ø | 0.001 | Constant degradation of ArcA | ||||
| FNR + 2 O2 -> FNRO + 2 O2 | 0.0005 | Oxidation of FNR. Oxygen is not consumed. | ||||
| FNR -> FNRO | 0.0001 | Reduction of oxidized FNR. | ||||
| FNRO -> ø | 0.001 | Degradation of oxidized FNR. | ||||
| ArcA + O2 -> ArcAO + O2 | 0.01 | Oxidation of Arca. Oxygen is not consumed. | ||||
| ArcaO -> ArcA | 0.001 | Reduction of oxidized ArcA | ||||
| ArcAO -> ø | 0.001 | Degradation of oxidized ArcA | ||||
| pOx + FNR -> pOxFNR | 0.1 | Binding of FNR to vgb promoter | ||||
| pOxFNR -> pOx + FNR | 0.05 | Unbinding of FNR and vgb promoter | ||||
| pOxFNR -> pOx | 0.001 | Degradation of FNR bound to promoter | ||||
| pOxFNR + ArcA -> pOxFNRArcA | 0.5 | Binding of ArcA to FNR-promoter complex. | ||||
| pOxFNRArcA -> pOxFNR + ArcA | 0.02 | Unbinding of ArcA to FNR-promoter complex. | ||||
| pOxFNRArcA -> pOx + FNR | 0.001 | Degradation of ArcA to FNR-promoter complex. | ||||
| pOxFNR -> pOxFNR + mLuxR | 0.005 | Transcription of LuxR mRNA | ||||
| mLuxR -> ø | 0.00227 | Degradation of LuxR mRNA | ||||
| mLuxR -> mLuxR + LuxR | 0.0167 | Translation of LuxR | ||||
| LuxR -> ø | 0.0001 | Degradation of LuxR | ||||
| Lux promoter | ||||||
| ø -> SAM | 2 | Constant production of S-adenosylmethionine | ||||
| SAM -> ø | 0.01 | Constant degradation of SAM | ||||
| ø -> hex | 2 | Constant production of 3-oxo-hexanoyl-CoA | ||||
| hex -> ø | 0.01 | Constant degradation of hex | ||||
| LuxI + SAM -> LuxISAM | 2 | Binding of LuxI and SAM. | ||||
| LuxISAM -> LuxI + SAM | 1 | Unbinding of LuxI and SAM | ||||
| LuxISAM -> SAM | 0.0002814 | Degradation of LuxI in complex | ||||
| LuxISAM + hex -> LuxISAMhex | 2 | Formation of complex of LuxI, SAM and hex | ||||
| LuxISAMhex -> LuxISAM + hex | 1 | Complex disasembles | ||||
| LuxISAMhex -> SAM + hex | 0.0002814 | LuxI degrades in complex | ||||
| LuxISAMhex -> LuxI + HSL | 0.0167 | Homoserine lactone formed from SAM and hex | ||||
| HSL -> ø | 0.1 | Diffusion of HSL | ||||
| 2 LuxR + 2 HSL -> LuxRHSL | 0.002372 | HSL and LuxR forms a complex | ||||
| LuxRHSL -> 2 LuxR + 2 HSL | 1 | LuxR-HSL complex disassembles | ||||
| LuxRHSL -> LuxR + 2 HSL | 0.0001 | Degradation of LuxR in complex | ||||
| pLux + LuxRHSL -> pLuxLuxRHSL | 1 | Binding of LuxRHSL to promoter | ||||
| pLuxLuxRHSL -> pLux + LuxRHSL | 0.1 | Unbinding of LuxRHSL and promoter | ||||
| pLuxLuxRHSL -> pLux + LuxR + 2 HSL | 0.0001 | Degradation of LuxR in complex | ||||
| pLuxLuxRHSL -> pLuxLuxRHSL + mHolin | 0.005 | Transcription of holin mRNA | ||||
| mHolin -> ø | 0.0025 | Degradation of holin mRNA | ||||
| mHolin -> mHolin + holin | 0.0167 | Translation of holin mRNA | holin -> ø | 0.0002 | Degradation of holin | |
| ø -> antiholin | 0.2 | Constant production of antiholin | ||||
| antiholin -> ø | 0.0002 | Degradation of antiholin | ||||
| holin + antiholin -> holinantiholin | 0.1 | Formation of holin-antiholin complex | ||||
| holinantiholin -> holin + antiholin | 0.01 | Solvation of holin-antiholin complex | ||||
| holinantiholin -> holin | 0.0002 | Degradation of antiholin in complex. | ||||
| holinantiholin -> antiholin | 0.0002 | Degradation of holin in complex. | ||||
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