Team:ETH Zurich/modeling/parameters
From 2014.igem.org
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|k<sub>GFP,LuxI</sub>||10 min<sup>-1</sup>||Production rate of GFP and LuxI||Assumed | |k<sub>GFP,LuxI</sub>||10 min<sup>-1</sup>||Production rate of GFP and LuxI||Assumed | ||
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|k<sub>-offBxb1</sub>||100 nM<sup>-2</sup>min<sup>-1</sup>||Rate of flipping of T<sub>offBxb1</sub> to T<sub>on,f</sub>||Assumed | |k<sub>-offBxb1</sub>||100 nM<sup>-2</sup>min<sup>-1</sup>||Rate of flipping of T<sub>offBxb1</sub> to T<sub>on,f</sub>||Assumed | ||
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{{:Team:ETH Zurich/tpl/foot}} | {{:Team:ETH Zurich/tpl/foot}} |
Revision as of 07:55, 9 October 2014
Parameters
No model is complete without parameters. Our exhaustive list of parameters are summarised in the table below.
Parameter | Value | Description | Reference |
---|---|---|---|
αLuxR | 60 nMmin-1 | Production rate of LuxR | Estimated |
kRLux | 0.1 nM-1min-1 | Rate of formation of RLux from 30C6HSL and LuxR | Weber |
k-RLux | 10 min-1 | Dissociation rate of RLux | Weber |
kDRLux | 0.05 nM-1min-1 | Dimerization rate of RLux | Weber |
k-DRLux | 1 min-1 | Dissociation rate of DRLux | Weber |
KdPLux | 0.007652 nM | Dissociation rate constant for DRLux-PLux | Fitted |
d30C6HSL | 0.004 min-1 | Degradation rate of 30C6HSL | Estimated/Fitted |
dLuxR | 0.0174 min-1 | Degradation rate of LuxR | Weber |
dRLux | 0.0174 min-1 | Degradation rate of RLux | Weber |
dDRLux | 0.0231 min-1 | Degradation rate of DRLux | Weber |
dBxb1 | 0.01 min-1 | Degradation rate of Bxb1 | Assumed |
LPLux | 0.04458 nM-1min-1 | Leakiness after using riboswitch for PLux | Fitted |
αLasR | 60 nMmin-1 | Production rate of LasR | Estimated |
kRLas | 0.1 nM-1min-1 | Rate of formation of RLas from 30C12HSL and LasR | Weber |
k-RLas | 10 min-1 | Dissociation rate of RLas | Weber |
kDRLas | 0.05 nM-1min-1 | Dimerization rate of RLas | Weber |
k-DRLas | 1 min-1 | Dissociation rate of DRLas | Weber |
KdPLas | 1.3672 nM | Dissociation rate constant for DRLas-PLas | Fitted |
d30C12HSL | 0.004 min-1 | Degradation rate of 30C12HSL | Estimated/Fitted |
dLasR | 0.0174 min-1 | Degradation rate of LasR | Weber |
dRLas | 0.0174 min-1 | Degradation rate of RLas | Weber |
dDRLas | 0.0231 min-1 | Degradation rate of DRLas | Weber |
dϕC31 | 0.01 min-1 | Degradation rate of ϕC31 | Assumed |
LPLux | 0.02461 nM-1min-1 | Leakiness after using riboswitch for PLas | Fitted |
kDBxb1 | 1 nM-1min-1 | Dimerization rate of Bxb1 | Fitted |
k-DBxb1 | 10-4 min-1 | Dissociation rate of DBxb1 | Fitted |
kSABxb1 | 1 nM-1min-1 | Rate of formation of SABxb1 from DBxb1 and SIBxb1 | Fitted |
k-SABxb1 | 10-4 min-1 | Dissociation rate of SABxb1 | Fitted |
dDBxb1 | 0.02 min-1 | Degradation rate of DBxb1 | Assumed |
kϕc31 | 1 nM-1min-1 | Dimerization rate of ϕc31 | Fitted |
k-Dϕc31 | 10-4 min-1 | Rate of dissociation of Dϕc31 | Fitted |
kSAϕc31 | 1 nM-1min-1 | Rate of formation of SAϕc31 from Dϕc31 and SIϕc31 | Fitted |
k-SAϕc31 | 10-4 min-1 | Rate of dissociation of SAϕc31 | Fitted |
dDϕc31 | 0.02 min-1 | Degradation rate of Dϕc31 | Assumed |
koffBxb1 | 100 nM-2min-1 | Rate of flipping of Ton,i to ToffBxb1 | Assumed |
kGFP,LuxI | 10 min-1 | Production rate of GFP and LuxI | Assumed |
k-offBxb1 | 100 nM-2min-1 | Rate of flipping of ToffBxb1 to Ton,f | Assumed |