| | Name | Kf | Kb | Kd | tau | Substrate | Product |
| 1 |
2_LuxR-AI_
degradation | kf
(s^-1) | 0
(s^-1) | - | - | 2_LuxR-AI
| Degraded_2_
LuxR-AI
|
| | Degradation of the dimer of the complex between Lux R and autoinducer. kf = 0.2, McMillen et al (2002) PNAS 99(2) 679-84 |
| 2 |
AI_degradation | kf
(s^-1) | 0
(s^-1) | - | - | AI-1
| Degraded_AI
|
| | Degradation of autoinducer. kf = 0.2, McMillen et al (2002) PNAS 99(2): 679-84 |
| 3 |
AI_diffusion | kf
(s^-1) | 2
(s^-1) | Keq = 1(uM) | 0.25sec | AI-1
| AI-extracellular
|
| | Diffusion of the autoinducer from inside the cell to the outside and vice versa. Garcia-Ojalvo, J et al. (2004) PNAS USA 101(30):10955-10960 |
| 4 |
AI_form | kf
(s^-1) | 0
(s^-1) | - | - | LuxI
| AI-1
|
| | Formation of Autoinducer The forward rate has taken from PNAS 101: 10955-60 by Garcia & Elowitz et al (2004) |
| 5 |
LuxI_
degradation | kf
(s^-1) | 0
(s^-1) | - | - | LuxI
| degraded_LuxI
|
| | This reaction denotes degradation of LuxI, kf = 25, McMillen et al (2002) PNAS 99(2): 679-84 |
| 6 |
luxI_mRNA_
degradation | kf
(s^-1) | 0
(s^-1) | - | - | luxI_mRNA
| Degraded_luxI_
mRNA
|
| | This reaction denotes the degradation of the luxI m-RNA, the half life of which is two minutes. t1/2 = 0.693/k where k denotes kf Garcia-Ojalvo, J. et al. (2004) PNAS USA 101(30):10955-10960 As described for components of the Repressilator by Elowitz, M. et al. (2000) Nature 403:335-338 |
| 7 |
LuxI_operator_
inhibitor_
reaction | kf
(uM^-1 s^-1) | 224
(s^-1) | Kd(bf) = 0.224(uM) | - | LuxI_operator
Lac-1
| LuxI_operator_
1st_bound
|
| | This signifies the second binding of the repressor with the operator Kf = 1 /nM/sec Kb = 224 /sec Garcia-Ojalvo, J. et al. (2004) PNAS USA 101(30):10955-10960 As described for components of the Repressilator in Box 1 Elowitz, M. et al. (2000) Nature 403:335-338 |
| 8 |
LuxI_operator_
inhibitor_
reaction[1] | kf
(uM^-1 s^-1) | 9
(s^-1) | Kd(bf) = 0.009(uM) | - | LuxI_operator_
1st_bound
Lac-1
| LuxI_operator_
2nd_bound
|
| | This signifies the second binding of the repressor with the operator Kf = 1 /nM/sec Kb = 9 /sec Garcia-Ojalvo, J. et al. (2004) PNAS USA 101(30):10955-10960 As described for components of the Repressilator in Box 1 Elowitz, M. et al. (2000) Nature 403:335-338 |
| 9 |
LuxR-AI_
complex_
dimerization | kf
(uM^-1 s^-1) | 0.1
(s^-1) | Keq = 0.0556(uM) | - | LuxR-AI
LuxR-AI
| 2_LuxR-AI
|
| | Dimerization of the complex between Lux R and the autoinducer protein Kf = 1.8e+18 /sec/M = 1.8 /sec/uM McMillen, M. et al. (2002) PNAS USA 99(2):679-684 |
| 10 |
LuxR-AI_
degradation | kf
(s^-1) | 0
(s^-1) | - | - | LuxR-AI
| Degraded_
LuxR-AI
|
| | Degradation of autoinducer complexed to LuxR, kf = 0.2, McMillen et al (2002) PNAS 99(2) 679 - 84 |
| 11 |
LuxR_binding_
autoinducer | kf
(uM^-1 s^-1) | 0.1
(s^-1) | Kd(bf) = 0.02(uM) | - | AI-1
LuxR
| LuxR-AI
|
| | Binding of Lux R to the autoinducer protein Kf = 5e+06 /M = 5 /uM McMillen, M. et al. (2002) PNAS USA 99(2): 679-84 |
