Team:Paris/Modeling/f3bis

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|comments
|comments
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|-
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|(K<sub>21</sub><sup>eff</sup>/{coef<sub>fliA</sub>})
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|K<sub>21</sub><sup>eff</sup>
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|activation constant of FliA-pFlhDC <br> K<sub>12</sub>
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|dissociation constant OmpR_-_EnvZ <br> K<sub>21</sub><sup>eff</sup>
|nM
|nM
|
|
-
|
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|the literature [[Team:Paris/Modeling/Bibliography|[?] ]] gives K<sub>21</sub> =
|-
|-
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|n<sub>12</sub>
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|n<sub>21</sub>
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|complexation order of FliA-pFlhDC <br> n<sub>12</sub>
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|complexation order OmpR_-_EnvZ <br> n<sub>21</sub>
|no dimension
|no dimension
|
|
-
|
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|the literature [[Team:Paris/Modeling/Bibliography|[?] ]] gives n<sub>21</sub> =
|-
|-
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|β<sub>2</sub>
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|{coef<sub>env</sub>}
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|production rate of OmpR-pFlhDC '''with RBS E0032''' <br> β<sub>2</sub>
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|coefficient due to the difference of the RBS and degradation rate between EnvZ and GFP <br> ! not precised in the equations !
-
|nM.min<sup>-1</sup>
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|no dimension
-
|
+
|
|
 +
|! not precised in the equations ! watch out to write the corresponding simulating program
|-
|-
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|(K<sub>22</sub>/{coef<sub>omp</sub>})
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|[EnvZ]<sub>b</sub>
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|activation constant of OmpR-pFlhDC <br> K<sub>22</sub>
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|"basal" presence of EnvZ <br> [EnvZ]<sub>b</sub>
|nM
|nM
|
|
-
|
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|the literature [[Team:Paris/Modeling/Bibliography|[?] ]] gives, under high osmolarity, [EnvZ]<sub>b</sub> =
|-
|-
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|n<sub>22</sub>
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|[OmpR]<sub>b</sub>
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|complexation order of OmpR-pFlhDC <br> n<sub>22</sub>
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|"basal" presence of OmpR <br> [OmpR]<sub>b</sub>
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|no dimension
+
|nM
-
|
+
|
|
 +
|the literature [[Team:Paris/Modeling/Bibliography|[?] ]] gives, under high osmolarity, [OmpR]<sub>b</sub> =
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|}

Revision as of 11:17, 16 October 2008

F3env.png
(see the considerations on the use of EnvZ)

We have [EnvZ]produced = {coefenv}expr(pTet) = {coefenv} ƒ1([aTc]i)

and [EnvZ]total = [EnvZ]b + [EnvZ]produced

and [FliA] = {coefFliA}expr(pBad) = {coefFliA} ƒ2([arab]i)

So, if we denote phosphorylated OmpR by OmpR*, we have

F3ompfromenv.jpg

that we can then introduce in the previous expression (see ƒ3) :

F3ompfinalenv.jpg



param signification unit value comments
[expr(pFlhDC)] expression rate of
pFlhDC with RBS E0032 		nM.min-1 need for 20 mesures with well choosen values of [aTc]i
γGFP dilution-degradation rate
of GFP(mut3b) 		min-1 0.0198
[GFP] GFP concentration at steady-state nM need for 20
(fluorescence) value of the observed fluorescence au need for 20
conversion conversion ratio between
fluorescence and concentration 		nM.au-1 (1/79.429)



param signification
corresponding parameters in the equations 		unit value comments
K21eff dissociation constant OmpR_-_EnvZ
K21eff 		nM the literature [?] gives K21 =
n21 complexation order OmpR_-_EnvZ
n21 		no dimension the literature [?] gives n21 =
{coefenv} coefficient due to the difference of the RBS and degradation rate between EnvZ and GFP
 ! not precised in the equations ! 		no dimension ! not precised in the equations ! watch out to write the corresponding simulating program
[EnvZ]b "basal" presence of EnvZ
[EnvZ]b 		nM the literature [?] gives, under high osmolarity, [EnvZ]b =
[OmpR]b "basal" presence of OmpR
[OmpR]b 		nM the literature [?] gives, under high osmolarity, [OmpR]b =
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