Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
X X_degradation c0 MassAction
X X_synthesis c0 GeneralKinetics
R R_synthesis c0 GeneralKinetics
R R_degradation c0 GeneralKinetics

Reaction Name: X_degradation

Universal ID's

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Reaction Name: X_synthesis

Universal ID's

Text Annotations

Reaction Name: R_synthesis

Universal ID's

Text Annotations

Reaction Name: R_degradation

Universal ID's

Text Annotations

Reaction Name: X_degradation

Expressions

reaction rate

(Kf * X) [uM.s-1]

forward rate constant

k4 [s-1]

reverse rate constant

0.0 [uM.s-1]

user defined

1.0 [s-1]

Reaction Name: X_synthesis

Expressions

reaction rate

(k3 * S) [uM.s-1]

user defined

1.0 [s-1]

Reaction Name: R_synthesis

Expressions

reaction rate

(k1 * S) [uM.s-1]

user defined

2.0 [s-1]

Reaction Name: R_degradation

Expressions

reaction rate

(k2 * X * R) [uM.s-1]

user defined

2.0 [s-1.uM-1]

Structures

Name
Type
Electrical
c0 Compartment (+)   (-)

Structure Name: c0

Universal ID's

Text Annotations

Species

Name
Structure
S c0
R c0
X c0

Species Name: S

Universal ID's

Text Annotations

Species Name: R

Universal ID's

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Species Name: X

Universal ID's

Text Annotations

Molecules

Name
Description
S S ()
R R ()
X X ()

Molucule Name: S

Universal ID's

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Molucule Name: R

Universal ID's

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Molucule Name: X

Universal ID's

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Observables

Name
Domain
Molecular Type
Sequence Type
O0_S_tot Molecules S Multimolecular
O0_R_tot Molecules R Multimolecular
O0_X_tot Molecules X Multimolecular

Observables Name: O0_S_tot

Universal ID's

Text Annotations

Observables Name: O0_R_tot

Universal ID's

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Observables Name: O0_X_tot

Universal ID's

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Applications

Name
Properties Math Type
PerfectlyAdapted Specs - Species
Specs - Reaction
Simulations

Application Name: PerfectlyAdapted

Text Annotations

Annotations will come here

Universal ID's

RFID | pubmed

Specifications (Species) - PerfectlyAdapted go to Simulations

Species
Initial Condition
Diffusion Constant
S 1.0 0.0
R 0.0 0.0
X 0.0 0.0

Specifications (Reaction) - PerfectlyAdapted go to Simulations

Name
Enabled?
X_degradation included
X_synthesis included
R_synthesis included
R_degradation included

Simulations - PerfectlyAdapted go to Specifications

Name
End Time
Output Options
Simulation0 20.0 every

Simulation Name: Simulation0

Universal ID's

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Global Parameters

Name
Expression

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML