Degradation of C2-R2

The SCB-ScbR protein complex (C₂R₂) degrades.

Chemical equation

$C_{2}R_{2}\rightarrow \varnothing$

Rate equation

$r= d_{CR}\cdot[C_{2}R_{2}]$

Parameters

The parameter of this reaction is the degradation rate of C₂R₂ ($d_{CR}$). The parameter values were derived from proteomics studies on different proteins of S. coelicolor.

Name	Value	Units	Value in previous GBL models	Remarks-Reference
$d_{CR}$	$8.3 \cdot 10^{-4}-0.0037 min^{-1}$	$min^{-1}$	$0.062 s^{-1}$ $0.0031 s^{-1}$ (Range tested: $10^{-7}-10^{-1} s^{-1}$) (Bistability range: $0.061-0.17 s^{-1}$ and $0.0031-0.068 s^{-1}$)	In a quantitative proteomics study on protein turnover rates in dynamic systems, Jayapal et al. reported the degradation rates of 115 proteins in S. coelicolor cultures undergoing transition from exponential growth to stationary phase. The values were in the range $0.05-0.22 h^{-1} (8.3 \cdot 10^{-4}-0.0037 min^{-1})$ with a median of $0.097 h^{-1} (0.00162 min^{-1})$. Jayapal et al. 2012 The full list of the proteins studied and their turnover rate constants can be found here.

Parameters with uncertainty

The most plausible parameter value for the $d_{CR}$ is decided to be $0.00118 min^{-1}$ and the confidence interval $1.41$. This means that the mode of the PDF is 0.00118 and the range where 95% of the values are found is between $0.8369\cdot 10^{-3}$ and $1.67 \cdot 10^{-3} min^{-1}$.

The probability distribution for the parameter, adjusted accordingly in order to reflect the above values, is the following:

The location and scale parameters of the distribution are:

Parameter	μ	σ
$d_{CR}$	$-6.7120$	$0.174$