Team:Groningen/Modelling/Characterization
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[http://2009.igem.org/Team:Groningen http://2009.igem.org/wiki/images/f/f1/Igemhomelogo.png]
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- Modelling
- DetailedModel
- Characterization
- Downloads
We have four kinds of parts we would like to characterize (RPS stands for Relative Promoter Strength):
Importers | Accumulators | Sensors | GVP cluster |
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RPS → Δvmax | RPS → Asbound(As(III)in) | metal(t) → RPS(t) | RPS → GV |
We can measure how much v5 (vmax for As(III) import via GlpF) is in wild-type E.coli and when we over express GlpF at a certain promoter strength v5(RPS) = v5wt + Δv5*RPS v5(0) = v5wt + Δv5*0 v5(S) = v5wt + Δv5*S Δv5 = (v5(1) - v5(0))/S | RPS → Asbound(As(III)in)
For both MBPArsR and fMT we assume the amount of bound As(III) behaves as TODO | metal(t) → RPS(t) | RPS → GV |
Uptake measurements
Time (min) | ||||||
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0 | 10 | 20 | 40 | 60 | ||
As(III)exT(0) (µM) | 0 | x | ||||
10 | x | x | x | x | x | |
20 | x | |||||
50 | x | |||||
100 | x |
To efficiently look at both time and concentration dependent processes we took samples as in the table on the right. Below we list all results, which have been used for fitting all necessary parameters.
TODO: List results. Take conversion from nmol/mg and mg/ml to µM and Vc/Vs into account.
best | cur | gradient | solved | |
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v5/K5 | ||||
v5 | ||||
K5 | ||||
k8/K7 | ||||
k8 | ||||
K7 | ||||
tauBbetaB | ||||
tauB | ||||
betaB | ||||
tauR | ||||
betaRN | ||||
tauFbetaF | ||||
tauF | ||||
betaF | ||||
tauKbetaK | ||||
tauK | ||||
betaK | ||||
tauGbeta5 | ||||
tauG | ||||
beta5 | ||||
ars2T | ||||
E |
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