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. 2011 Jul 29;5:119. doi: 10.1186/1752-0509-5-119

Table 1.

Parameters and data in simulations

Parameter/Data Symbol Distribution Value(mode) cv Unit
RK2 abundance D0 lognormal 4.5 0.5 nM
KorA abundance Atot lognormal 1600 [18] 0. 5 nM
KorB abundance Btot lognormal 400 [28] 0. 5 nM
KorB abundance (mutant) BMtot lognormal 920 0. 5 nM
Scaling parameter for KorA synthesis πX uniform [0,1] - -
Scaling parameter for KorB synthesis πY uniform [0,1] - -
KorA synthesis kA - - - s-1
KorB synthesis kB - - - s-1
KorA affinity to DNA k1 lognormal 12.9 [18] 0. 5 nM
KorB affinity to DNA k2 lognormal 9.3 [22] 0. 5 nM
KorA affinity to KorB-DNA k3 lognormal 3.1 0. 5 nM
KorB affinity to KorA-DNA k4 lognormal 3.1 [22] 0. 5 nM
KorA monomerization σA - - - s-1
KorB monomerization σB - - - s-1
KorA dimerization λA lognormal 0.001 0.05 nM-1s-1
KorB dimerization λB lognormal 0.001 0.05 nM-1s-1
Protein degradation γP lognormal 0.0003875 0.05 s-1

cv - coefficient of variation; RK2 abundance (D0) and protein degradation (γP) are calculated for bacteria with the population doubling time of 43 minutes; KorB abundance for plasmid mutant (BMtot) is unpublished data from C. Thomas et al.; affinity of KorA to the KorB-DNA complex (k3) were assumed to be three fold higher as it is in the case of affinity of KorB to the KorA-DNA complex (k4); dimerization rates were defined by diffusion properties.