Physiology
Reaction Diagram
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 |
Reaction Name: Recruitment of Rab5_GDP
Expressions
lumped reaction rate
(endosome * K1) [mole.s-1]
user defined
1.0 [mol.s-1.l-1]
Reaction Name: Activation of Rab5
Expressions
lumped reaction rate
(endosome * ((Rab5_GDP * ((ke * t) / (100.0 + t))) / (1.0 + exp(((kg - Rab5_GTP) * kf))))) [mole.s-1]
user defined
0.3 [s-1]
user defined
2.5 [M-1]
user defined
0.1 [M]
Reaction Name: extraction of Rab5_GDP
Expressions
lumped reaction rate
(endosome * (kminus1 * Rab5_GDP)) [mole.s-1]
user defined
1.0 [s-1]
Structures
| Name | Type | Electrical |
|---|---|---|
| endosome | Compartment | (+) (-) |
Species
Molecules
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
| Name | Properties | Math Type |
|---|---|---|
| Deterministic |
Specs -
Species Specs - Reaction Simulations |
Specifications (Species) - Deterministic go to Simulations
Specifications (Reaction) - Deterministic go to Simulations
Simulations - Deterministic go to Specifications
| Name | End Time | Output Options |
|---|---|---|
| Simulation0 | 1000.0 | every |