Team:Grenoble/Projet/Modelling/Parameters

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                                     <option value="/Deterministic#Our_EquationsTS" >Our equations - Toggle switch</option>
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Latest revision as of 03:02, 29 October 2011

Grenoble 2011, Mercuro-Coli iGEM


Modelling - Parameters

Parameters

PDF file (detailed explanation on parameters and how we deduced them) for Toggle Switch
kplac pLac production rate 600 proteins/min [1]
kpTet pTet production rate 600 proteins/min [1]
kpMer pMer production rate 600 proteins/min [1]
δLacI LacI degradation rate 4.6E-2 min−1 PDF file
δTetR TetR degradation rate 4.6E-2 min−1 PDF file
δMerR MerR degradation rate 4.6E-2 min−1 PDF file
KpLac - LacI plac - LacI dissociation constant 5.45E-7 M Kyoto 10
KpMer - MerR pMer - MerR dissociation constant 1.00E-8 M [2]
KpTet - TerR pTet - TetR dissociation constant 5.00E-8 M [3]
KLacI - IPTG LacI - IPTG dissociation constant 2.96E-5 M [4]
KTetR - aTc aTc - TetR dissociation constant 1.5E-8 M [5]
KHg2+ - MerR Hg2+ - MerR dissociation constant 1E-7 M [2]
nplac plac cooperativity number 2,3 [4]
npMer pMer cooperativity number 2,5 [6]
npTet pTet cooperativity number 3 [7]

Working with the aTc/TetR parameters, we needed to now if our system could work with mercury. In order to see if it's applicable to mercury, we realized a sensitivity to parameters study.

References

[1] Nature. 2000 Jan 20;403(6767):335-8. A synthetic oscillatory network of transcriptional regulators. Elowitz MB, Leibler S.

[2] Mol Gen Genet. 1999 Aug;262(1):154-62. Purification and characterization of MerR, the regulator of the broad-spectrum mercury resistance genes in Streptomyces lividans 1326. Rother D, Mattes R, Altenbuchner J.

[3] David Braun et al. Parameter estimation for two synthetic gene networks: A case study. IEEE 2005.

[4] Nature 403, 339-342 (20 January 2000) Construction of a genetic toggle switch in Escherichia coli. Timothy S. Gardner Charles R. Cantor & James J. Collins

[5] O. Scholz, P. Schubert, M. Kintrup and W. Hillen, Tet repressor induction without Mg2+, Biochemistry 39 (2000), pp. 10914–10920

[6] Ultrasensitivity and heavy-metal selectivity of the allosterically modulated MerR transcription complex. D M Ralston and T V O'Halloran

[7] Systems analysis of a quorum sensing network: design constraints imposed by the functional requirements, network topology and kinetic constants. Goryachev AB, Toh DJ, Lee T.

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