Team:KULeuven/Modeling/Blue Light Receptor

From 2009.igem.org

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[[image:Bls.JPG|650px|center]]
[[image:Bls.JPG|650px|center]]
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<center>
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{| width=80% style="border: 1px solid #003E81; background-color: #EEFFFF;"
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|+ ''Parameter values (Vanillin Sensor)''
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! width=15% | Name
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! width=15% | Value
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! width=40% | Comments
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! width=10% | Reference
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|-
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! colspan="4" style="border-bottom: 1px solid #003E81;" | Degradation Rates
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|-
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| d<sub>mRNA</sub>
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| 2.3105E-3 s<sup>-1</sup>
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|
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [4<html>]</html>]
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|-
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| d<sub>Proteins</sub>
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| 1.9254E-5 s<sup>-1</sup>
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|
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [5<html>]</html>]
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|-
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! colspan="4" style="border-bottom: 1px solid #003E81;" | Transcription Rates
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|-
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| k<sub>transcription</sub>
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| 0.00848 s<sup>-1</sup>
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| estimate
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [6<html>]</html>]
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|-
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| k<sub>translation</sub>
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| 0.167 s<sup>-1</sup>
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| estimate
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [6<html>]</html>]
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|-
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! colspan="4" style="border-bottom: 1px solid #003E81;" | Phosphorylation Parameters
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|-
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| k<sub>autophosphorylation</sub>
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| 0.00237 (s molecule)<sup>-1</sup>
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| Rate of autophosphorylation of VirA protein
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [2<html>]</html>]
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|-
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| k<sub>phosphorylation</sub>
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| 0.00416 s<sup>-1</sup>
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| Rate of phosphorylation of VirG by phosphorylated VirA.
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| [https://2009.igem.org/Team:KULeuven/Modelling/Vanillin_Production#References [3<html>]</html>]
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|-
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|}
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</center>
==Simulation==
==Simulation==

Revision as of 08:23, 17 September 2009

Contents

Blue light Sensor

Biological Model

Biologie blue light.png

Mathematical Model

Bls.JPG
Parameter values (Vanillin Sensor)
Name Value Comments Reference
Degradation Rates
dmRNA 2.3105E-3 s-1 [4]
dProteins 1.9254E-5 s-1 [5]
Transcription Rates
ktranscription 0.00848 s-1 estimate [6]
ktranslation 0.167 s-1 estimate [6]
Phosphorylation Parameters
kautophosphorylation 0.00237 (s molecule)-1 Rate of autophosphorylation of VirA protein [2]
kphosphorylation 0.00416 s-1 Rate of phosphorylation of VirG by phosphorylated VirA. [3]

Simulation

The amount of produced RIBOKEY is positively correlated on the incident blue radiation. The build up of key in the begin period of is due to the relative slow build up of the active state of YcgF protein in compared to the build up of YcgE.

Blue light sensor.png

References

[1] Natalia Tschowri, Susan Busse and Regine Hengge, "The BLUF-EAL protein YcgF acts as a direct anti-repressor in a blue-light response of Escherichia coli"

[2] Y. Nakasone et al., "Transient Dimerization and Conformational Change of a BLUF Protein: YcgF", Journal of the American Chemical Society, Apr. 2006

Retrieved from "http://2009.igem.org/Team:KULeuven/Modeling/Blue_Light_Receptor"