Team:KULeuven/Modelling/Vanillin Receptor

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Revision as of 09:43, 18 August 2009

Vanillin diffusion

Because the VirA protein sensor domain is located in the cytoplasmic region, it senses intercellular vanillin concentration. Because the objective of this project is to regulate the extracellular vanillin concentration we investigate the relation between the intercellular and extracellular vanillin concentration. It will be shown that on the time-scale we are interested in, intracellular and extracellular concentration are equal.

We can approximate the relationship with following equation

Continuity equation: <math>d[V_inter]/dt = V_production-k_diffusion(V_inter-V_extra)</math>

V_inter: intercellular concentration V_extra: extracellular concentration V_production: production of vannilin k_diffusion: speed of diffusion in and out cell

rewriting the above equation gives <math>V_extra = V_intra+1/k_diffusion*(d[V_inter]/dt - V_production)</math>

If the k_diffusion is big, on the time-scale we are interested in, we are not interested in phenomena which occur within 1 minute, V_extra and V_intra can be regarded as equal.

Inner Membrane thickness: 8 nm

Outer Membrane thickness: 12 nm

Periplasm thickness: 10 nm

We neglect the outer membrane because the porins make the membrane permeable.

@@ Line 1: / Line 1: @@
-{{Team:KULeuven/Common/BeginHeader}}
+==Vanillin diffusion==
-{{Team:KULeuven/Common/SubMenu_Project}}
-{{Team:KULeuven/Common/EndHeader}}
-=Vanillin Sensor=
+Because the VirA protein sensor domain is located in the cytoplasmic region, it senses intercellular
+vanillin concentration.
+Because the objective of this project is to regulate the extracellular vanillin concentration we investigate the
+relation between the intercellular and extracellular vanillin concentration.
+It will be shown that on the time-scale we are interested in, intracellular and extracellular concentration are equal.
-== Overview ==
+We can approximate the relationship with following equation
-The vanillin receptor senses the vanillin concentration outside the cell. This information is needed to create the feedback loop to control vanillin synthesis. Under influence of vanillin, Vir A gets autophosphorylated and phosphorylates on its turn Vir G. Vir G triggers the transcription of Anti-key.
-[[image:Biologie_vanillin_receptor.png|center]]
+Continuity equation:
-[[image:Biologie_antikey.png|center]]
+<math>d[V_inter]/dt = V_production-k_diffusion(V_inter-V_extra)</math>
-==Models==
-[[image:Vanillin_receptor.png|600px|center]]
+V_inter: intercellular concentration
+V_extra: extracellular concentration
+V_production: production of vannilin
+k_diffusion: speed of diffusion in and out cell
+rewriting the above equation gives
+<math>V_extra = V_intra+1/k_diffusion*(d[V_inter]/dt - V_production)</math>
+If the k_diffusion is big, on the time-scale we are interested in, we are not interested in phenomena which occur
+within 1 minute, V_extra and V_intra can be regarded as equal.
-==Vanillin diffusion==
 [[image:Cell_wall.png|600px|center]]
-[[image:virA_virG.jpg|600px|center]]
+[[image:virA_virG.JPG|600px|center]]
 Inner Membrane thickness: 8 nm