Team:Imperial College London/Modelling/Signalling/Results and Conclusion

From 2010.igem.org

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We are assuming an initial concentration of Phosphate and ComE of 100nM.  
We are assuming an initial concentration of Phosphate and ComE of 100nM.  
If we change either [AIP]<html><sub>0</sub></html> or [ComE]<html><sub>0</sub></html>, then the final concentration of ComE* will always tend towards <html>5&times;10<sup>-11</sup>M</html>. <html>[ComE*]<sub>final</sub></html> will always tend towards this value, unless the initial concentrations of Phosphate and ComE are changed. However, if we increase both [AIP]<html><sub>0</sub></html> and [ComE]<html><sub>0</sub></html> at the same time, then [ComE*]<html><sub>final</sub></html> will be reached much faster (i.e. slope increases).
If we change either [AIP]<html><sub>0</sub></html> or [ComE]<html><sub>0</sub></html>, then the final concentration of ComE* will always tend towards <html>5&times;10<sup>-11</sup>M</html>. <html>[ComE*]<sub>final</sub></html> will always tend towards this value, unless the initial concentrations of Phosphate and ComE are changed. However, if we increase both [AIP]<html><sub>0</sub></html> and [ComE]<html><sub>0</sub></html> at the same time, then [ComE*]<html><sub>final</sub></html> will be reached much faster (i.e. slope increases).
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'''Equation:''' Phosphate group on ComD binds to ComE and forms two products: phosphorylated ComE (ComE*) and AIP-ComD 
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|'''Final Equation:''' AIP-ComD*-ComE <html>&harr;</html> AIP-ComD + ComE*
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AIP-ComD*-ComE ↔ AIP-ComD + ComE*
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|<div ALIGN=CENTER>
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<div ALIGN=CENTER>
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  {| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
  {| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
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</div>
</div>
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<div ALIGN=CENTER>
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|'''Equation 1:'''AIP + ComD <html>&harr;</html> AIP-ComD
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|<div ALIGN=CENTER>
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{| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
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|[[Image:IC_Signalling_Results2.png|400px]]
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|Graph showing the production of Pr-ComD complex.
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</div>
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|'''Equation 2:''' AIP-ComD + Phosphate <html>&harr;</html> AIP-ComD*
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|<div ALIGN=CENTER>
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{| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
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|[[Image:IC_Signalling_Results3.png|400px]]
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|Graph showing the production of phosphorylated Pr-ComD* complex.
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|}
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</div>
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|'''Equation 3:''' AIP-ComD* + ComE <html>&harr;</html> AIP-ComD*-ComE
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|<div ALIGN=CENTER>
  {| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
  {| style="background:#e7e7e7;text-align:center;font-family: helvetica, arial, sans-serif;color:#555555;margin- top:5px;padding: 2px;" cellspacing="5";
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  |[[Image:IC_Signalling_Results2.png|270px]] [[Image:IC_Signalling_Results3.png|270px]] [[Image:IC_Signalling_Results4.png|260px]]
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  |[[Image:IC_Signalling_Results4.png|380px]]
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  |1. Graph showing the production of Pr-ComD complex. 2. Graph showing the production of phosphorylated Pr-ComD* complex. 3. Graph showing the production of Pr-ComD*-ComE complex. Notice the steep increase of concentration for each of these graphs, which could be due to the high k<sub>1,2,3,4</sub> values.
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  |Graph showing the production of Pr-ComD*-ComE complex.
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</div>
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Revision as of 15:16, 27 October 2010

Modelling Overview | Detection Model | Signaling Model | Fast Response Model | Interactions
A major part of the project consisted of modelling each module. This enabled us to decide which ideas we should implement. Look at the Fast Response page for a great example of how modelling has made a major impact on our design!
Objectives | Description | Results | Constants | MATLAB Code
Results and Conclusion
Using this model, we can show that the phosphorylated ComE* is proportional to both initial concentration of AIP and ComD.

If the initial concentration of AIP or ComD is zero, there is no formation of ComE*. We are assuming an initial concentration of Phosphate and ComE of 100nM. If we change either [AIP]0 or [ComE]0, then the final concentration of ComE* will always tend towards 5×10-11M. [ComE*]final will always tend towards this value, unless the initial concentrations of Phosphate and ComE are changed. However, if we increase both [AIP]0 and [ComE]0 at the same time, then [ComE*]final will be reached much faster (i.e. slope increases).

Final Equation: AIP-ComD*-ComE ↔ AIP-ComD + ComE*
IC Signalling Results1.png
Graph showing how [ComE*]final eventually reaches the value 5×10-11M.
Equation 1:AIP + ComD ↔ AIP-ComD
IC Signalling Results2.png
Graph showing the production of Pr-ComD complex.
Equation 2: AIP-ComD + Phosphate ↔ AIP-ComD*
IC Signalling Results3.png
Graph showing the production of phosphorylated Pr-ComD* complex.
Equation 3: AIP-ComD* + ComE ↔ AIP-ComD*-ComE
IC Signalling Results4.png
Graph showing the production of Pr-ComD*-ComE complex.
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