EdinburghModeling

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|19 ||Urease production ||promoter4->promoter4+Urease ||Michaelis-Menton ||V19m=10, K19m=40
|19 ||Urease production ||promoter4->promoter4+Urease ||Michaelis-Menton ||V19m=10, K19m=40
|}
|}
-
Note: The units for first, second and third order rate constants are expressed in units of second^-1, nMol^-1*second^-1 and l^2*nMol^-2*second^-1 respectively.
+
Note: The units for first, second and third order rate constants are expressed in units of second^-1, nMol^-1*second^-1 and L^2*nMol^-2*second^-1 respectively.
 +
 
 +
== Intial concentration ==
 +
{|border=1
 +
| No. || Species || Intial Concentration (nMol/L)
 +
|-
 +
|1 ||ArsD ||25
 +
|-
 +
|2 ||As(III) ||40
 +
|-
 +
|3 ||2ArsD-promoter1 ||25
 +
|-
 +
|4 ||promoter1 ||5
 +
|-
 +
|5 ||ArsR ||25
 +
|-
 +
|6 ||2ArsR-promoter2 ||25
 +
|-
 +
|7 ||promoter2 ||5
 +
|-
 +
|8 ||LCI ||4
 +
|-
 +
|9 ||LacI ||0.1
 +
|-
 +
|10 ||LacI-allolactose ||0.1
 +
|-
 +
|11 ||allolactose ||1000
 +
|-
 +
|12 ||LacI-promoter4 ||0.1
 +
|-
 +
|13 ||promoter4 ||25
 +
|-
 +
|14 ||LCI-promoter4 ||0.1
 +
|-
 +
|15 ||Urease ||0.1
 +
|-
 +
|16 ||promoter3 ||5
 +
|-
 +
|17 ||Other species ||0
 +
|}

Revision as of 21:38, 11 September 2006

System Diagram of Arsenic Biosensor

Model Diagram2.JPG

Reaction set

No. Name Equation Rate Law Parameters
1 ArsD binding to Arsenic (III) ArsD+2As(III)=ArsD-2As(III)Mass Action K1=1000 K-1=0.65
2 ArsD binding to promoter1 2 ArsD+promoter1=2ArsD-promoter1 Mass ActionK2=10000, K-2=0.65
3 ArsD degradation ArsD->null Mass ActionK3=0.05
4 ArsD production promoter1->promoter1+ArsDMichaelis-Menton V4m=0.5, K4m=75
5 ArsR binding to Arsenic (III) ArsR+2As(III)=ArsR-2As(III) Mass Action K5=1000, K-5=0.65
6 ArsR binding to promoter2 2ArsR+promoter2=2ArsR-promoter2 Mass Action K6=10000, K-6=0.65
7 ArsR degradation ArsR->null Mass Action K7=0.05
8 ArsR production promoter2->promoter2+ArsR Michaelis-Menton V8m=10, K8m=25
9 LacI binding to allolactose LacI+allolactose=LacI-allolactose Mass Action K9=10000, K-9=0.1
10 LacI binding to promoter4 LacI+promoter4 = LacI-promoter4 Mass Action K10=1000, K-10=0.5
11 LacI degradation LacI->null Mass Action K11=0.1
12 LacI production promoter3->promoter3+LacI Michaelis-Menton V12m=0.5, K12m=40
13 lacZ degradation lacZ->null Mass Action K13=0.1
14 lacZ production promoter1->promoter1+lacZ Michaelis-Menton V14m=25, K14m=10
15 LCI binding to promoter 4 LCI+promoter4=LCI-promoter4 Mass Action K15=10000, K-15=0.5
16 LCI degradation LCI->null Mass Action K16=0.1
17 LCI production promoter2->promoter2+LCI Michaelis-Menton V17m=10, K17m=25
18 Urease degradation Urease->null Mass Action K18=0.1
19 Urease production promoter4->promoter4+Urease Michaelis-Menton V19m=10, K19m=40

Note: The units for first, second and third order rate constants are expressed in units of second^-1, nMol^-1*second^-1 and L^2*nMol^-2*second^-1 respectively.

Intial concentration

No. Species Intial Concentration (nMol/L)
1 ArsD 25
2 As(III) 40
3 2ArsD-promoter1 25
4 promoter1 5
5 ArsR 25
6 2ArsR-promoter2 25
7 promoter2 5
8 LCI 4
9 LacI 0.1
10 LacI-allolactose 0.1
11 allolactose 1000
12 LacI-promoter4 0.1
13 promoter4 25
14 LCI-promoter4 0.1
15 Urease 0.1
16 promoter3 5
17 Other species 0
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