Table 3

Parameters of the lac operon models

Symbol

Value

Units

Description

R_{0,E. coli}

0.4

μm

E. coli radius

L_{E. coli}

2.3

μm

Representative E. coli length

A_{E. coli}

5.8

μm²

E. coli membrane area (for the above length)

V_{E. coli}

1.0

fL

E. coli volume (for the above length)

O_T

1

(copy number)

operator molecular content

k_sMR

0.23

nM·min^-1

lacI transcription rate

k_sR

15

min^-1

LacI monomer translation rate constant

k_2R

50

nM^-1·min^-1

LacI dimerization rate constant

k_-2R

10^-3

min^-1

LacI dimer dissociation rate constant

k_r

960

nM^-1·min^-1

association rate constant for repression

k_-r

2.4

min^-1

dissociation rate constant for repression

k_dr1

3·10^-7

nM^-2·min^-1

association rate constant for 1^st derepression mechanism

k_-dr1

12

min^-1

dissociation rate constant for 1^st derepression mechanism

k_dr2

3·10^-7

nM^-2·min^-1

association rate constant for 2^nd derepression mechanism

k_-dr2

4.8·10³

nM^-1·min^-1

dissociation rate constant for 2^nd derepression mechanism

k_s1MY

0.5

min^-1

lacY transcription rate constant

k_s0MY

0.01

min^-1

leak lacY transcription rate constant

k_sY

30

min^-1

lacY translation rate constant

k_p

0.12

nM^-1·min^-1

LacY-inducer association rate constant

k_-p

0.1

min^-1

LacY-inducer dissociation rate constant

k_ft

6·10⁴

min^-1

TMG facilitated transport constant

h_t

1.55·10^-6

dm·min^-1

TMG passive diffusion permeability constant

λ_MR

0.462

min^-1

lacI mRNA degradation constant

λ_MY

0.462

min^-1

lacY mRNA degradation constant

λ_R

0.2

min^-1

LacI monomer degradation constant

λ_R2

0.2

min^-1

LacI dimer degradation constant

λ_Y

0.2

min^-1

LacY degradation constant

λ_YIex

0.2

min^-1

LacY-inducer degradation constant

λ_I2R2

0.2

min^-1

repressor-inducer degradation constant

g

0.0231

(min^-1)

cell growth rate parameter

n_d

25

(dim/less)

division propensity sharpness exponent

V_d,crit

15

(fL)

critical volume for division

q

80

(dim/less)

beta distribution sharpness exponent

n_s

25

(dim/less)

DNA duplication propensity sharpness exponent

V_s,crit

10

(fL)

critical volume for DNA duplication

Stamatakis and Zygourakis BMC Bioinformatics 2011 12:301   doi:10.1186/1471-2105-12-301