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Table 4 Rate equations, reactors and respective rate constants employed in simulation. Represented in the table are the details of the reaction and reactor type along with kinetic constants. Theoretical and Kinetic data used for defining the rate equations taken from literature are quoted. Those indicated in * are defined as concentration/second.

From: A simulation model of Escherichia coli osmoregulatory switch using E-CELL system

Reaction Equation Constant Comments
Formation of EnvZk and EnvZp v = k [envz] [s] v = k [envz] [s] k = 15.6 μM k = 0.15 μM (High osmolarity) (low osmolarity) Catalysed Mass action reactor, velocity is calculated as a product of concentrations of substrates and kinetic constants [Data as presented by Yoshida et al [29]]
Formation of EnvZkp and EnvZpp KmS = 1 μM* KcF = 10 μM* KmS = 10 μM* KcF = 100 μM* As per chemotaxis data. Kinetics of the reaction described by Henri Michaelis Menten equation derived from rapid equilibrium assumptions [(Bray et al [4]]
Formation of EnvZkpompr and EnvZppompr complex KmS = 0.51 μM* KcF = 10 μM* KmS = 0.42 μM* KcF = 20 μM* As per chemotaxis data Kinetics of the reaction described by Henri Michaelis Menten equation derived from rapid equilibrium assumptions. [(Bray et al [4]]
Dissociation of EnvZkpompr, EnvZppompr, EnvZkomprp and EnvZpomprp complexes v = rate Rate = 1.20 μM Represented by zero reactor, velocity is independent of concentration of molecular species [data as presented by Yoshida et al [29]]
Formation of F1omprp, F1F2omprp, F1F2F3omprp v = k [f1] v = k [f1f2] v = k [f1f2f3] v = k [f1f2f3f4] k = 6.8 nM k = 10.7 nM k = 15.4 nM k = 21.2 nM Mass action reactor, velocity is calculated as a product of concentrations of substrates and kinetic constants [data as presented Head et al [28]]
Formation of C1omprp, C1C2omprp, C1C2C3omprp v = k [c1] v = k [c1c2] v = k [c1c2c3] k = 7.7 μM k = 18.9 μM k = 31.4 μM Mass action reactor, velocity is calculated as a product of concentrations of substrates and kinetic constants [data as presented Head et al [28]]
Degradation of F1F2F3F4 OmpRp (OmpF repression) [f1f2f3f4omprp]   In the reactor class decay process, substrate reduced according to the half-life inputted. [Bergstrom et al [28]]
Formation of OmpC and OmpF v(OmpC) = k [c1c2c3omprp] [envzk] v(OmpF) = k [f1f2f3fomprp] [envzp] k = 1 μM k = 1 μM Catalysed Mass action reactor, velocity is calculated as a product of concentrations of substrates and kinetic constants (Batchelor and Goulian [39])