Table 1.
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calculated for bacteria with the population doubling time of 43 minutes; KorB abundance for plasmid mutant (BMtot) is unpublished data from C. Thomas et al.; affinity of KorA to the KorB-DNA complex (k3) were assumed to be three fold higher as it is in the case of affinity of KorB to the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.