***Model Definition---
ID = and
Name = Created by iBioSim flatten routine
Substance Units = mole
Time Units = 
Volume Units = litre
Area Units = 
Length Units = 
Extent Units = 
Conversion Factor = 
Model Components:
listOfUnitDefinitions
listOfCompartments
listOfSpecies
listOfParameters
listOfReactions
listOfEvents
---End of Model Definition---


***Unit Definitions---
2
ID = u_1_second_n1
Val = s^(-1)
Kind = SECOND
Name = 
ID = u_1_mole_n1
Val = mol^(-1)
Kind = MOLE
Name = 
---End of Units Definition---

***Compartment Definitions---
1
ID = Cell
Name = 
Spatial Dimensions = 3.0
Size = 1.0
Unit = 
Constant = true
---End of Compartment Definition---

***Species Definitions---
9
ID = CI
Name = 
Compartment = Cell
Initial Amount = 0.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = GFP
Name = 
Compartment = Cell
Initial Amount = 0.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = LacI
Name = 
Compartment = Cell
Initial Amount = 0.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = true
Constant = false
Conversion Factor = null

ID = TetR
Name = 
Compartment = Cell
Initial Amount = 0.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = true
Constant = false
Conversion Factor = null

ID = Promoter_GFP
Name = 
Compartment = Cell
Initial Amount = 2.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = P1
Name = 
Compartment = Cell
Initial Amount = 4.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = P3
Name = 
Compartment = Cell
Initial Amount = 2.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = P3_mRNA
Name = 
Compartment = Cell
Initial Amount = 0.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

ID = P2
Name = 
Compartment = Cell
Initial Amount = 2.0
Initial Concentration = NaN
Substance Units = 
OnlySubstanceUnits = true
Boundary Condition = false
Constant = false
Conversion Factor = null

---End of Species Definition---

***Parameters Definitions---
25
ID = ko_r
Name = Reverse RNAP binding rate
Value = 1.0
Units = 
Constant = true

ID = nr
Name = Initial RNAP count
Value = 30.0
Units = 
Constant = true

ID = np
Name = Stoichiometry of production
Value = 10.0
Units = 
Constant = true

ID = kr_r
Name = Reverse repression binding rate
Value = 1.0
Units = 
Constant = true

ID = ka_f
Name = Forward activation binding rate
Value = 0.0033
Units = 
Constant = true

ID = kecdiff
Name = Extracellular diffusion rate
Value = 1.0
Units = 
Constant = true

ID = ko
Name = Open complex production rate
Value = 0.05
Units = 
Constant = true

ID = kmdiff_f
Name = Forward membrane diffusion rate
Value = 1.0
Units = 
Constant = true

ID = kecd
Name = Extracellular degradation rate
Value = 0.005
Units = 
Constant = true

ID = kc_r
Name = Reverse complex formation rate
Value = 1.0
Units = 
Constant = true

ID = kr_f
Name = Forward repression binding rate
Value = 0.5
Units = 
Constant = true

ID = ka_r
Name = Reverse activation binding rate
Value = 1.0
Units = 
Constant = true

ID = nc
Name = Stoichiometry of binding
Value = 2.0
Units = 
Constant = true

ID = kao_r
Name = Reverse activated RNAP binding rate
Value = 1.0
Units = 
Constant = true

ID = kd
Name = Degradation rate
Value = 0.0075
Units = 
Constant = true

ID = kb
Name = Basal production rate
Value = 1.0E-4
Units = 
Constant = true

ID = ng
Name = Initial promoter count
Value = 2.0
Units = 
Constant = true

ID = ka
Name = Activated production rate
Value = 0.255
Units = 
Constant = true

ID = kao_f
Name = Forward activated RNAP binding rate
Value = 1.0
Units = 
Constant = true

ID = kmdiff_r
Name = Reverse membrane diffusion rate
Value = 0.01
Units = 
Constant = true

ID = ko_f
Name = Forward RNAP binding rate
Value = 0.033
Units = 
Constant = true

ID = kc_f
Name = Forward complex formation rate
Value = 0.05
Units = 
Constant = true

ID = High
Name = 
Value = 60.0
Units = 
Constant = true

ID = HighTime
Name = 
Value = 2000.0
Units = 
Constant = true

ID = HighTime2
Name = 
Value = 4000.0
Units = 
Constant = true

---End of Parameters Definition---




***Reactions---
7
ID = Degradation_GFP
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 1 = GFP
Reac Stoichiometry = 1.0
R-Constant = true
Products: 0 = 
Prod Stoichiometry = 
P-Constant = 
Modifiers:0 = 
Local Parameters: 1 = kd
Local Parameter Values = 0.0075
Math = kd*GFP

ID = Degradation_CI
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 1 = CI
Reac Stoichiometry = 1.0
R-Constant = true
Products: 0 = 
Prod Stoichiometry = 
P-Constant = 
Modifiers:0 = 
Local Parameters: 1 = kd
Local Parameter Values = 0.0075
Math = kd*CI

ID = Degradation_TetR
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 1 = TetR
Reac Stoichiometry = 1.0
R-Constant = true
Products: 0 = 
Prod Stoichiometry = 
P-Constant = 
Modifiers:0 = 
Local Parameters: 1 = kd
Local Parameter Values = 0.0075
Math = kd*TetR

ID = Degradation_LacI
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 1 = LacI
Reac Stoichiometry = 1.0
R-Constant = true
Products: 0 = 
Prod Stoichiometry = 
P-Constant = 
Modifiers:0 = 
Local Parameters: 1 = kd
Local Parameter Values = 0.0075
Math = kd*LacI

ID = R_abstracted_production_P1
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 0 = 
Reac Stoichiometry = 
R-Constant = 
Products: 1 = CI
Prod Stoichiometry = 10.0
P-Constant = true
Modifiers:1 = LacI
Local Parameters: 6 = RNAP, ng__P1, Ko__P1, ko__P1, nc__LacI_P1, Kr__LacI_P1
Local Parameter Values = 30.0, 4.0, 0.033, 0.05, 2.0, 0.5
Math = ko__P1*ng__P1*Ko__P1*RNAP/(1+Ko__P1*RNAP+(Kr__LacI_P1*LacI)^nc__LacI_P1)

ID = R_abstracted_production_P2
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 0 = 
Reac Stoichiometry = 
R-Constant = 
Products: 1 = CI
Prod Stoichiometry = 10.0
P-Constant = true
Modifiers:1 = TetR
Local Parameters: 6 = RNAP, ng__P2, Ko__P2, ko__P2, nc__TetR_P2, Kr__TetR_P2
Local Parameter Values = 30.0, 2.0, 0.033, 0.05, 2.0, 0.5
Math = ko__P2*ng__P2*Ko__P2*RNAP/(1+Ko__P2*RNAP+(Kr__TetR_P2*TetR)^nc__TetR_P2)

ID = R_abstracted_production_Promoter_GFP
Name = 
Reversible = false
Fast = false
Compartment = Cell
Reactants: 0 = 
Reac Stoichiometry = 
R-Constant = 
Products: 1 = GFP
Prod Stoichiometry = 10.0
P-Constant = true
Modifiers:1 = CI
Local Parameters: 6 = RNAP, ng__Promoter_GFP, Ko__Promoter_GFP, ko__Promoter_GFP, nc__CI_Promoter_GFP, Kr__CI_Promoter_GFP
Local Parameter Values = 30.0, 2.0, 0.033, 0.05, 2.0, 0.5
Math = ko__Promoter_GFP*ng__Promoter_GFP*Ko__Promoter_GFP*RNAP/(1+Ko__Promoter_GFP*RNAP+(Kr__CI_Promoter_GFP*CI)^nc__CI_Promoter_GFP)

---End of Reactions Definition---

***Event Definitions---
2
ID = event0
Priority = null
UserValueFromTriggerTime = true
Trigger Persistent = true
Trigger InitAssign = true
Trigger Math: t >= HighTime
Delay Math: null
Assignment: TetR = High
ID = event1
Priority = null
UserValueFromTriggerTime = true
Trigger Persistent = true
Trigger InitAssign = true
Trigger Math: t >= HighTime2
Delay Math: null
Assignment: LacI = High
---End of Events Definition---

