Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Structures

Name
Type
Electrical
env Compartment (+)   (-)

Species

Name
Structure
Rp env
X env
Yp env
S env
Y env
R env

Molecules

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

Observables

Name
Domain
Molecular Type
Sequence Type
O0_R_tot Molecules R Multimolecular
O0_X_tot Molecules X Multimolecular
O0_Y_tot Molecules Y Multimolecular
O0_S_tot Molecules S Multimolecular

Applications

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
Rp 0.0 0.0
X 0.0 0.0
Yp 0.0 0.0
S 0.0 0.0
Y (Yt - Yp) 0.0
R (Rt - Rp) 0.0

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
X_synthesis included
X_degradation included
Y_phosphorylation included
Y_dephosphorylation included
R_phosphorylation included
R_dephosphorylation included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options
Simulation0 1.0 every

Global Parameters

Name
Expression
k0 0.0[mol.s-1.l-1]
k1 1.0[s-1]
k2 0.01[s-1]
k2_prime 10.0[M-1.s-1]
k3 0.1[s-1]
Yt 1.0[M]
Km3 0.01[M]
k4 0.2[mol.s-1.l-1]
Km4 0.01[M]
k5 0.1[s-1]
Rt 1.0[M]
Km5 0.01[M]
k6 0.05[mol.s-1.l-1]
Km6 0.01[M]

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML