| 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
|
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