Revision as of 21:51, 15 September 2015

"What I cannot create I do not understand."
- Richard Feynmann

Parameters

Name	Value	Description	References/Estimation
\(K_{d,\text{LuxRAHL}}\)	100 nM	Dissociation constant between luxR and AHL	Weber, 2013
\(\text{LuxR}_\text{tot}\)	0.0025 μM	Total concentration of LuxR	estimated
\(a_\mathrm{LuxI}\)	1 μM.min^-1	Maximal production rate of LuxI	Basu, 2005
\(a_\mathrm{LuxI,ribo}\)	0.1 μM.min^-1	Maximal production rate of LuxI	ETHZ 2014
\(k_\mathrm{leaky}\)	0.0375 μM^-1	Coefficient for leakiness dependency on LuxR concentration of P_LuxR promoter	ETHZ 2013
\(K_\mathrm{a,LuxRAHL}\)	9.89 nM	Activation coefficient of LuxRAHL	Estimated from our own data
\(K_\mathrm{LuxRAHL,ribo}\)	285 nM	Activation coefficient of LuxRAHL in case of a riboregulated LuxR responsive promoter	ETHZ 2014
\(L_\mathrm{lux,ribo}\)	0.01463 nM.min^-1	Leakiness after using riboswitch for P_lux	ETHZ 2014
\(n_\mathrm{lux}\)	1.7	Hill coefficient for LuxRAHL activation	ETHZ 2014
\(d_\mathrm{LuxI}\)	0.0167 min^-1	Degradation rate of LuxI	MIT 2010
\(a_\mathrm{AHL}\)	0.04 μM.min^-1	Production rate of AHL	Weber, 2013
\(d_\mathrm{AHL}\)	0.01 min^-1	Degradation rate of AHL	Basu, 2005
\(v_\mathrm{AiiA}\)	\(k_\mathrm{cat} \cdot C_\mathrm{AiiA} \)	Maximal conversion rate of AiiA
\(k_\mathrm{cat}\)	1.63 10³min^-1	Turnover number of AiiA	Wang, 2004
\(C_\mathrm{AiiA}\)	varied	Concentration of AiiA
\(K_\mathrm{M,AiiA}\)	2.95 10³ μM	Half-maximal rate substrate concentration of AiiA	Wang, 2004
\(a_\mathrm{GFP}\)	2 μM.min^-1	Maximal production rate of GFP	Basu, 2005
\(d_\mathrm{GFP}\)	0.01 min^-1	Degradation rate of GFP	estimated from doubling time of E. coli

Name	Value	Description	References/Estimation
\(N_{d}\)	150	Number of E. coli in the doughnut	Maximal number of E. coli that would fit on the surface
\(N_{b,max}\)	12798	Maximum number of E. coli in the bulk	Considering the maximal OD is 2
\(V_{cell,d}\)	6 μm³	Volume around an E. coli in the doughnut	estimated
\(V_{cell,b,worst}\)	78 μm³	Volume around an E. coli in the bulk	Worst case, estimated from \(N_{b,max}\)
\(V_{cell,b,norm}\)	1000 μm³	Volume around an E. coli in the bulk	Normal case

Name	Description	Minimum Value	Maximum Value	References/Estimation
\(D_\text{AHL,agar}\)	Diffusion coefficient of AHL in agar	\(3.0\times 10^{-10} m^2/s\)	\(4.41\times 10^{-10} m^2/s\)	Trovato, 2014 Fatin-Rouge, 2004

@@ Line 30: / Line 30: @@
 <tr><td>\(a_\mathrm{LuxI,ribo}\)</td><td>0.1 &mu;M.min<SUP>-1</SUP></td><td>Maximal production rate of LuxI</td><td><a href="https://2014.igem.org/Team:ETH_Zurich">ETHZ 2014</a></td></tr>
 <tr><td>\(k_\mathrm{leaky}\)</td><td>0.0375 &mu;M<SUP>-1</SUP></td><td>Coefficient for leakiness dependency on LuxR concentration of P<SUB>LuxR</SUB> promoter </td><td><a href="https://2013.igem.org/Team:ETH_Zurich/Parameter"> ETHZ 2013 </a></td></tr>
-<tr><td>\(K_\mathrm{a,LuxRAHL}\)</td><td>9.89 nM</td><td>Activation coefficient of LuxRAHL </td><td>Estimated from our < a href="https://2015.igem.org/Team:ETH_Zurich/Modeling/AHL_Module#_Dose_response_curves_and_apparent_K_M__values">own data</a></td></tr>
+<tr><td>\(K_\mathrm{a,LuxRAHL}\)</td><td>9.89 nM</td><td>Activation coefficient of LuxRAHL </td><td>Estimated from our <a href="https://2015.igem.org/Team:ETH_Zurich/Modeling/AHL_Module#_Dose_response_curves_and_apparent_K_M__values">own data </a></td></tr>
 <tr><td>\(K_\mathrm{LuxRAHL,ribo}\)</td><td>285 nM</td><td>Activation coefficient of LuxRAHL in case of a riboregulated LuxR responsive promoter </td><td><a href="https://2014.igem.org/Team:ETH_Zurich">ETHZ 2014</a></td></tr>
 <tr><td>\(L_\mathrm{lux,ribo}\)</td><td>0.01463  nM.min<SUP>-1</SUP></td><td>Leakiness after using riboswitch for P<SUB>lux</SUB> </td><td><a href="https://2014.igem.org/Team:ETH_Zurich">ETHZ 2014</a></td></tr>