Table 3

Parameters of the lac operon models

Symbol

Value

Units

Description


R0,E. coli

0.4

μm

E. coli radius

LE. coli

2.3

μm

Representative E. coli length

AE. coli

5.8

μm2

E. coli membrane area (for the above length)

VE. coli

1.0

fL

E. coli volume (for the above length)

OT

1

(copy number)

operator molecular content

ksMR

0.23

nM·min-1

lacI transcription rate

ksR

15

min-1

LacI monomer translation rate constant

k2R

50

nM-1·min-1

LacI dimerization rate constant

k-2R

10-3

min-1

LacI dimer dissociation rate constant

kr

960

nM-1·min-1

association rate constant for repression

k-r

2.4

min-1

dissociation rate constant for repression

kdr1

3·10-7

nM-2·min-1

association rate constant for 1st derepression mechanism

k-dr1

12

min-1

dissociation rate constant for 1st derepression mechanism

kdr2

3·10-7

nM-2·min-1

association rate constant for 2nd derepression mechanism

k-dr2

4.8·103

nM-1·min-1

dissociation rate constant for 2nd derepression mechanism

ks1MY

0.5

min-1

lacY transcription rate constant

ks0MY

0.01

min-1

leak lacY transcription rate constant

ksY

30

min-1

lacY translation rate constant

kp

0.12

nM-1·min-1

LacY-inducer association rate constant

k-p

0.1

min-1

LacY-inducer dissociation rate constant

kft

6·104

min-1

TMG facilitated transport constant

ht

1.55·10-6

dm·min-1

TMG passive diffusion permeability constant

λMR

0.462

min-1

lacI mRNA degradation constant

λMY

0.462

min-1

lacY mRNA degradation constant

λR

0.2

min-1

LacI monomer degradation constant

λR2

0.2

min-1

LacI dimer degradation constant

λY

0.2

min-1

LacY degradation constant

λYIex

0.2

min-1

LacY-inducer degradation constant

λI2R2

0.2

min-1

repressor-inducer degradation constant

g

0.0231

(min-1)

cell growth rate parameter

nd

25

(dim/less)

division propensity sharpness exponent

Vd,crit

15

(fL)

critical volume for division

q

80

(dim/less)

beta distribution sharpness exponent

ns

25

(dim/less)

DNA duplication propensity sharpness exponent

Vs,crit

10

(fL)

critical volume for DNA duplication


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

Open Data