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Table 1 Probability rates for positive autogenous circuit

From: Genetic noise control via protein oligomerization

Category

Symbol

Reaction

Value (s-1)

Ref.

protein dimerization

k 1

P1 + P1 → P2

0.001–0.1

[51, 52]

 

q 1

P2 → P1 + P1

0.1–1

 

TF-operator int

k 20

P2 + D00 → D20

0.012

[53–55]

 

q 20

D20 → P2 + D00

0.9

 
 

k 21

P1 + D00 → D10

0.038

 
 

q 21

D10 → P1 + D00

0.3

 
 

k 22

P1 + D10 → D20

0.011

 
 

q 22

D20 → P1 + D10

0.9

 

RNAp-promoter int

k 30

R + D00 → D01

0.038

[56–58]

 

q 30

D01 → R + D00

0.3

 
 

k 31

R + D10 → D11

0.038†, 0.38‡

 
 

q 31

D11 → R + D10

0.3†, 0.03‡

 
 

k 32

R + D20 → D21

0.38*†

 
 

q 32

D21 → R + D20

0.03*†

 

Isomerization

ν

Dx1 → C + Dx0

0.0078

[55]

tsx-tsl elongation & decay

α

C → M + R

0.03

[59, 60]

 

β

M → P1 + M

0.044

 
 

γ 0

M → ∅

0.0039

 
 

γ 1

P1 → ∅

7 × 10-4

 
 

γ 2

P2 → ∅

0.7–3.5 × 10-4

 
  1. Kinetic rates for the positive autogenous circuit. Experimentally available rates are all taken from lambda phage-E. coli complex. The values with superscript correspond to the circuit topologies DA1 (*), DA2 (†), and DA3 (‡) in Fig. 1.