Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Rab5_GDP Recruitment of Rab5_GDP endosome GeneralLumpedKinetics
Rab5_GDP Rab5_GTP Activation of Rab5 endosome GeneralLumpedKinetics
Rab5_GDP extraction of Rab5_GDP endosome GeneralLumpedKinetics
Rab5_GTP Rab5_GDP Hydrolysis of Rab5_GTP endosome GeneralLumpedKinetics
Rab5_GTP Rab5_GDP Hydrolysis of Rab5_GTP_d endosome GeneralLumpedKinetics

Structures

Name
Type
Electrical
endosome Compartment (+)   (-)

Species

Name
Structure
Rab5_GDP endosome
Rab5_GTP endosome
Rab7_GTP endosome

Molecules

Name
Description
Rab5 Rab5 ( BS )
Rab7 Rab7 ( BS )
GTP GTP ( BS )
GDP GDP ( BS )

Observables

Name
Domain
Molecular Type
Sequence Type
O0_Rab5_tot Molecules Rab5 Multimolecular
O0_GTP_tot Molecules GTP Multimolecular
O0_GDP_tot Molecules GDP Multimolecular

Applications

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
Rab5_GDP 1.0 0.0
Rab5_GTP 0.001 0.0
Rab7_GTP 0.001 0.0

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
Recruitment of Rab5_GDP included
Activation of Rab5 included
extraction of Rab5_GDP included
Hydrolysis of Rab5_GTP included
Hydrolysis of Rab5_GTP_d included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options
Simulation0 1000.0 every

Global Parameters

Name
Expression

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML