Difference between revisions of "Serine out"
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==Parameters== | ==Parameters== | ||
+ | *For Transport reactions it is presumed to be at equilibrium, such that <math>K_{eq} = 1</math> and <math>K_{1} = K_{2}</math>. | ||
+ | |||
{|class="wikitable" | {|class="wikitable" | ||
! Parameter | ! Parameter | ||
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|<math>S^{-1}</math> | |<math>S^{-1}</math> | ||
|Escherichia coli | |Escherichia coli | ||
+ | |- | ||
+ | |<math>K_{2}</math> | ||
+ | |0.0103 | ||
+ | |<math>S^{-1}</math> | ||
+ | | | ||
+ | |} | ||
+ | |||
+ | ==Parameters with uncertainty== | ||
+ | *The transport rates have been modelled using mass action kinetics (i.e., as non-saturable, non-enzymatic reactions). No information is available about the uncertainty of these parameters. As these parameters are strictly positive, they are sampled using a log-normal distribution as are and values. The means of <math>K_{1}</math> are set to the value reported in Turnaev (2006) et al. <ref name="Turnaev_2006"></ref> for the fixed-parameter model. The reaction is presumed to be at equilibrium, such that <math>K_{eq} = 1</math> and <math>K_{1} = K_{2}</math>. The sampling of the parameters are done in a way so that it ranges between <math>[0.001\times mean \quad 1000 \times mean ]</math> to allow a large exploration of the parameter space. | ||
+ | |||
+ | |||
+ | {|class="wikitable" | ||
+ | ! Parameter | ||
+ | ! Value | ||
+ | ! Organism | ||
+ | ! Remarks | ||
+ | |- | ||
+ | |<math>K_{1}</math> | ||
+ | |Sampled between 0.0000103 and 10.3 | ||
+ | |rowspan="2"|HeLa cell line | ||
+ | |rowspan="2"| | ||
+ | |- | ||
+ | |<math>K_{2}</math> | ||
+ | |Sampled between 0.0000103 and 10.3 | ||
|} | |} | ||
+ | |||
==References== | ==References== | ||
<references/> | <references/> |
Revision as of 11:34, 15 May 2014
This reaction describes the utilization of the endproduct Serine in other pathways.
Contents
Reaction equation
Rate equation
Simple reversible mass action rate law is used.
Parameters
- For Transport reactions it is presumed to be at equilibrium, such that and .
Parameter | Value | Units | Organism | Remarks |
---|---|---|---|---|
0.0103 [1] | Escherichia coli | |||
0.0103 |
Parameters with uncertainty
- The transport rates have been modelled using mass action kinetics (i.e., as non-saturable, non-enzymatic reactions). No information is available about the uncertainty of these parameters. As these parameters are strictly positive, they are sampled using a log-normal distribution as are and values. The means of are set to the value reported in Turnaev (2006) et al. [1] for the fixed-parameter model. The reaction is presumed to be at equilibrium, such that and . The sampling of the parameters are done in a way so that it ranges between to allow a large exploration of the parameter space.
Parameter | Value | Organism | Remarks |
---|---|---|---|
Sampled between 0.0000103 and 10.3 | HeLa cell line | ||
Sampled between 0.0000103 and 10.3 |