Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Rab7_GDP Recruitment of Rab7_GDP endosome GeneralLumpedKinetics
Rab7_GDP Rab7_GTP activation of Rab7 by GEF7 endosome GeneralLumpedKinetics
Rab7_GDP Rab7_GTP activation of Rab7 by GEF5 endosome GeneralLumpedKinetics
Rab7_GDP Extraction of Rab7_GDP endosome GeneralLumpedKinetics
Rab7_GTP Rab7_GDP Hydrolysis of Rab7_GTP endosome GeneralLumpedKinetics

Structures

Name
Type
Electrical
endosome Compartment (+)   (-)

Species

Name
Structure
Rab5_GTP endosome
Rab7_GDP 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_Rab7_tot Molecules Rab7 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_GTP 0.001 0.0
Rab7_GDP 1.0 0.0
Rab7_GTP 0.001 0.0

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
Recruitment of Rab7_GDP included
activation of Rab7 by GEF7 included
activation of Rab7 by GEF5 included
Extraction of Rab7_GDP included
Hydrolysis of Rab7_GTP 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