Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
RhoGTP Effector Effector_RhoGTP Effector_activation default GeneralKinetics
RhoGTP RhoGDP RhoGTP_to_RhoGDP default GeneralKinetics
RhoGDP RhoGTP RhoGDP_to_RhoGTP default GeneralKinetics

Structures

Name
Type
Electrical
default Compartment (+)   (-)

Species

Name
Structure
Active_GEF default
RhoGDP default
RhoGTP default
GDI default
GAP default
Effector default
Effector_RhoGTP default

Molecules

Name
Description
RhoGEF RhoGEF ( Active ~no ~yes )
G_protein G_protein ( State ~GTP ~GDP GDI Effector )
GDI GDI ( Rho )
RhoGAP RhoGAP ()
Effector Effector ( Rho Active ~yes ~no )

Observables

Name
Domain
Molecular Type
Sequence Type
O0_RhoGEF_tot Molecules RhoGEF Multimolecular
O0_G_protein_tot Molecules G_protein Multimolecular
O0_GDI_tot Molecules GDI Multimolecular
O0_RhoGAP_tot Molecules RhoGAP Multimolecular
O0_Effector_tot Molecules Effector Multimolecular

Applications

Specifications (Species) - GDI_integrated go to Simulations

Species
Initial Condition
Diffusion Constant
Active_GEF 0.31 0.0
RhoGDP 1.3 0.0
RhoGTP 0.0 0.0
GDI 0.7 0.0
GAP 0.1 0.0
Effector 1.0 0.0
Effector_RhoGTP 0.0 0.0

Specifications (Reaction) - GDI_integrated go to Simulations

Name
Enabled?
Effector_activation included
RhoGTP_to_RhoGDP included
RhoGDP_to_RhoGTP included

Simulations - GDI_integrated go to Specifications

Name
End Time
Output Options
Simulation0 600.0 every

Global Parameters

Name
Expression
k3 0.5[min-1]
k2 0.1[min-1]
kcatGEF 5.64[min-1]
KmGEFRho 24.5[umol.l-1]
KmGEFGDI 1.0[umol.l-1]
k1 1.0[l.umol-1.min-1]
kcatGAP 95.9[min-1]
KmGAPGDI 0.1[umol.l-1]
KmGAPRho 4.48[umol.l-1]
k5 0.05[min-1]
k4 0.5[l.umol-1.min-1]
k6 0.5[l.umol-1.min-1]
k7 0.05[min-1]
k8 28.2[l.umol-1.min-1]
k9 0.18[min-1]

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML