Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
PI3K PI3K_act PI3K_Activation_EGFR cell GeneralKinetics
PI3K PI3K_act PI3K_Activation_Ras cell GeneralKinetics
PI3K_act PI3K PI3K_Deactivation cell GeneralKinetics

Structures

Name
Type
Electrical
cell Compartment (+)   (-)

Species

Name
Structure
BioNetGen Definition
Depiction
LR cell EGF(EGF!1,).EGFR(ecd!1,Y~P!-,).
Ras_act cell Ras(Active~yes!-,).
PI3K_act cell PI3K(Active~yes!-,).
PI3K cell PI3K(Active~no!-,).

Molecules

Name
BioNetGen Definition
DEPICTION
EGFR EGFR(ecd,Y~P~U,)
EGF EGF(EGF,)
Ras Ras(Active~yes~no,)
PI3K PI3K(Active~yes~no,)

Observables

Name
Structure
Count
BNGL Definition
Sequence Type
DEPICTION

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
LR 0.0 0.0 [m2/min]
Ras_act 0.0 0.0 [m2/min]
PI3K_act 0.0 0.0 [m2/min]
PI3K 120000.0 0.0 [m2/min]

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
PI3K_Activation_EGFR included
PI3K_Activation_Ras included
PI3K_Deactivation included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options

Global Parameters

Name
Expression
Kcat_act 10.6737[min-1]
km_act 184912.0[mmol.ml-1]
km_PI3K_act 272056.0[mmol.ml-1]
Kcat_PI3Kact 0.0771067[min-1]
k1_act 0.005[min-1]

Downloads

Format
File
VCML VCML File
BNGL
MatLab
SBML
Formatted XML
SEDML