Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Structures

Name
Type
Electrical
env Compartment (+)   (-)

Species

Name
Structure
R env
X env
S env
E env
Ep env

Molecules

Name
Description
E E ( mod ~P ~U )
S S ()
R R ()
X X ()

Observables

Name
Domain
Molecular Type
Sequence Type
O0_E_tot Molecules E Multimolecular
O0_S_tot Molecules S Multimolecular
O0_R_tot Molecules R Multimolecular
O0_X_tot Molecules X Multimolecular

Applications

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
R 0.0 0.0
X 0.0 0.0
S 0.0 0.0
E (Et - Ep) 0.0
Ep (((2.0 * (k3 * R) * J4) / ((k4 - (k3 * R)) + (J3 * k4) + (J4 * (k3 * R)) + pow((pow(((k4 - (k3 * R)) + (J3 * k4) + (J4 * (k3 * R))),2.0) - (4.0 * (k4 - (k3 * R)) * (k3 * R) * J4)),(1.0 / 2.0)))) * Et) 0.0

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
R_synthesis included
R_synthesis2 included
R_degradation included
R_degradation_by_X included
E_phosphorylation included
E_dephosphorylation included
X_synthesis included
X_degradation included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options
Simulation0 10.0 every

Global Parameters

Name
Expression
k0 4.0[s-1]
k1 1.0[s-1]
k2 1.0[s-1]
k2_prime 1.0[M-1.s-1]
k3 1.0[s-1]
J3 0.3[1]
k4 1.0[mol.s-1.l-1]
J4 0.3[1]
k5 0.1[s-1]
k6 0.075[s-1]
Et 1.0[M]
Km3 (J3 * Et)[M]
Km4 (J4 * Et)[M]

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML