Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Raf1_inact Raf1_act Raf1_Activation cell GeneralKinetics
Raf1_act Raf1_inact Raf1_Deactivation cell GeneralKinetics
Raf1_act Raf1_inact Raf1_Deactivation_Akt cell GeneralKinetics

Structures

Name
Type
Electrical
cell Compartment (+)   (-)

Species

Name
Structure
BioNetGen Definition
Depiction
Ras_act cell Ras(status~active!-,).
Raf1_act cell Raf(status~active!-,).
Raf1_inact cell Raf(status~inactive!-,).
Akt_act cell Akt(status~active!-,).
Raf1_PPtase cell Raf(status~inactive!-,).Phosphotase().

Molecules

Name
BioNetGen Definition
DEPICTION
Ras Ras(status~active~inactive,)
Raf Raf(status~active~inactive,)
Akt Akt(status~active~inactive,)
Phosphotase Phosphotase()

Observables

Name
Structure
Count
BNGL Definition
Sequence Type
DEPICTION
Raf_total cell Molecules Raf(status!-,). Multimolecular

Applications

Name
Properties Math Type
Deterministic Specs - Species
Specs - Reaction
Simulations
Deterministic (ODE) Compartmental

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
Ras_act 0.0 0.0 [m2/min]
Raf1_act 0.0 0.0 [m2/min]
Raf1_inact 120000.0 0.0 [m2/min]
Akt_act 0.0 0.0 [m2/min]
Raf1_PPtase 120000.0 0.0 [m2/min]

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
Raf1_Activation included
Raf1_Deactivation included
Raf1_Deactivation_Akt included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options

Global Parameters

Name
Expression
km_act 62464.6[mmol.ml-1]
Kcat_act 0.884096[min-1]
Kcat_inact_PPt 0.126329[min-1]
km_inact_PPt 1061.71[mmol.ml-1]
Kcat_inact_Akt 15.1212[min-1]
km_inact_Akt 119355.0[mmol.ml-1]

Downloads

Format
File
VCML VCML File
BNGL
MatLab
SBML
Formatted XML
SEDML