Table 1

Parameters used in the deterministic and stochastic simulations
Parameter Description Value Reference
Kd1 dissociation constant of LuxR to A 100 nM [41]
<a onClick="popup('http://www.biomedcentral.com/1752-0509/7/6/mathml/M26','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/7/6/mathml/M26">View MathML</a> unbinding rate of LuxR to A 10 min−1 estimated
Kd2 dissociation constant of LuxR·AI dimerization 20 nM fitted
<a onClick="popup('http://www.biomedcentral.com/1752-0509/7/6/mathml/M27','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/7/6/mathml/M27">View MathML</a> dissociation rate of dimer (LuxR·AI)2 1 min−1 estimated
kA synthesis rate of A by LuxI 0.04 min−1 fitted
Kdlux dissociation constant of (LuxR·AI)2 to the lux promoter 200 nM fitted
<a onClick="popup('http://www.biomedcentral.com/1752-0509/7/6/mathml/M28','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/7/6/mathml/M28">View MathML</a> dissociation rate of (LuxR·AI)2 to the lux promoter 10 min−1 estimated
b burst size 20 [38]
kR transcription rate of luxR 200/bmin−1 fitted
kI transcription rate of luxI 50/bmin−1 fitted
pR translation rate of luxR mRNA bdmRmin−1
pI translation rate of luxI mRNA bdmImin−1
αR ratio between unactivated and activated rate of expression of luxR 0.001 fitted
αI ratio between unactivated and activated rate of expression of luxI 0.01 fitted
dA degradation rate of A (same inside and outside the cell) 0.001 min−1 [42]
<a onClick="popup('http://www.biomedcentral.com/1752-0509/7/6/mathml/M29','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/7/6/mathml/M29">View MathML</a> degradation rate of (LuxR·AI)2 0.002 min−1 estimated
dC degradation rate of LuxR·AI 0.002 min−1 estimated
dR degradation rate of LuxR 0.002 min−1 estimated
dI degradation rate of LuxI 0.01 min−1 estimated
dmR degradation rate of luxR mRNA 0.347 min−1 [43]
dmI degradation rate of luxI mRNA 0.347 min−1 [43]
D effective diffusion rate of A through the cell membrane 10 min−1 [44]
τ cell cycle duration (doubling time) in RM/succinate at 30 C 45 min [10]
λ relative weight between the det./sto. components of the cell cycle 0.8 [33,45]
V0 cell volume at the beginning of cell cycle 1.5 μm3 [46]
Vtot total cell culture volume 2·10−4μl

Weber and Buceta

Weber and Buceta BMC Systems Biology 2013 7:6   doi:10.1186/1752-0509-7-6

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