IGEM:UNAM Genomics Mexico/2009/Notebook/Wifi coli/2010/05/25

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A brief review to compare
A loop negative system. Degradation of the mRNA, protein and the rate of transcription.
 * What?.
 * Parameters?.

Perspectives for our system
Limitants -> lifespan of E. coli?, luciferin?.
 * Goes to a stable state.

"If is all on, we expect, that stuck there, but if one system turn off, maybe there is a stochastic component".

Lifespan TetR
$$δTetR= β - αTetRο$$
 * We need a tag for increase the degradation of our repressor.

We require a formula:

$$F([TetR]) = Pops$$

But what happen with the production of endougenos TetR?, exists?.
 * No... haha, it seems to be in a RESISTANCE plasmid.

Green emission


Input Pops -> Photons.

τ → ∞    ->     $$[14-CHO]=k$$
 * This because the action of deg. and the production of CDE by M. acid tend to stabilize

Again we need to propose a formula:

$$[LuxAB]=Pops=N*f(Promoter force)$$

Pathway
$$LuxAB-FMNH$$2$$-O$$2$$-R-CHO -> LuxAB + FMN + R-COOH + H$$2$$O + Light$$

And the enzymes work in this form (Daniela has the references in German :S):

$$Acid M. -$$LuxD$$> C$$13$$H$$27$$-COOH -$$LuxE$$>C$$13$$H$$27$$Co-Amp -$$LuxC$$> 14-CHO$$

Here we see:
 * It appears that the product of the aldehyde can enter in the recicle pathway of LuxC and LuxE
 * We assume that C & E enzymes will be ocuppied with more substrate than the D, that only receives the membrane acid to form R-COOH. This mean, we need a major concentration of LuxCE than LuxD

Perspectives
It is relevant?: Can we assume Micahel-Menten equation?
 * Formation of the dimer A|B
 * Formation of the complex FMN-AB
 * Formation of the complex R-CHO-FMN-AB
 * Temperature

To find list

 * Rate of deg. 14-CHO
 * Distribution of the acid trough the membrane
 * Size of the cell
 * Rates of transcription
 * Kcat´s and Km´s
 * Parameters that affects the emission.


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