Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
EGFR EGF LR EGF_Binding_Unbinding compartment GeneralKinetics
LR EGFR_deg EGFReceptor_Degradation compartment GeneralKinetics
proEGFR EGFR EGFReceptor_Production compartment GeneralKinetics
EGFR EGFR_deg EGFReceptor_Degradation_Free compartment GeneralKinetics

Structures

Name
Type
Electrical
compartment Compartment (+)   (-)

Species

Name
Structure
BioNetGen Definition
Depiction
LR compartment EGFR(Y~U!1,State~active!-,).EGF(Site0!1,).
EGFR compartment EGFR(Y~U!-,State~active!-,).
EGFR_deg compartment EGFR(Y~U!-,State~deg!-,).
EGF compartment EGF(Site0!-,).
proEGFR compartment EGFR(Y~U!-,State~deg!-,).

Molecules

Name
BioNetGen Definition
DEPICTION
EGFR EGFR(Y~P~U,State~deg~active,)
EGF EGF(Site0,)
SOS SOS(Active~yes~no,)
Ras Ras(Active~yes~no,)
Raf Raf(Active~yes~no,)
MEK MEK(Active~yes~no,)
ERK ERK(Active~yes~no,)
P90Rsk P90Rsk(Active~yes~no,)
PI3K PI3K(Active~yes~no,)
Akt Akt(Active~yes~no,)
C3G C3G(Active~yes~no,)
Rap1 Rap1(Active~yes~no,)
B_Raf B_Raf(Active~yes~no,)
PP2A PP2A(Active~yes~no,)
P_tase P_tase()
GAP GAP()

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]
EGFR 80000.0 0.0 [m2/min]
EGFR_deg 0.0 0.0 [m2/min]
EGF 1.0002E7 0.0 [m2/min]
proEGFR 1.0 0.0 [m2/min]

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
EGF_Binding_Unbinding included
EGFReceptor_Degradation included
EGFReceptor_Production included
EGFReceptor_Degradation_Free included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options
test 60.0

KeepEvery 1

KeepAtMost 1000

Global Parameters

Name
Expression
k1_deg 0.2[min-1]
v_EGFR 100.0[mmol.min-1.ml-1]
k1_EGFR 2.18503E-5[ml.min-1.mmol-1]
k2_EGFR 0.121008[min-1]

Downloads

Format
File
VCML VCML File
BNGL
MatLab
SBML
Formatted XML
SEDML