Reaction Diagram
Physiology
| Universal ID's | Text Annotations |
|---|---|
|
|
|
| Reaction |
Name
Structure
|
Kinetics | Depiction |
|---|---|---|---|
| RPR |
protein_phos
c0
|
HMMIrreversible | RPR |
|
|
|
reaction rate (J): ((Vmax * R) / (Km + R))[uM.s-1]
Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): S[uM.s-1] |
|
| PRR |
protein_dephos
c0
|
HMMIrreversible | PRR |
|
|
|
reaction rate (J): ((Vmax * PR) / (Km + PR))[uM.s-1]
Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): 1.0[uM.s-1] |
| Name |
Type
Electrical (Membrane Polarity)
|
|---|---|
| c0 |
Compartment
(+) (-)
|
|
|
|
| Name | Structure | BioNetGen Definition |
|---|---|---|
| S | c0 | S(). |
|
|
|
|
| R | c0 | R(mod~U!-,). |
|
|
|
|
| PR | c0 | R(mod~P!-,). |
|
|
|
| Name | Text Annotations | BioNetGen Definition |
|---|---|---|
| R | Text Annotations | R(mod~P~U,) |
|
|
|
|
| S | Text Annotations | S() |
|
|
|
| Name |
Type
Count
|
BioNetGen Definition |
|---|---|---|
| O0_R_tot |
Molecules Multimolecular |
R(mod!?,). |
|
|
|
|
| O0_S_tot |
Molecules Multimolecular |
S(). |
|
|
|
Applications
| Name | Math Type | Annotation |
|---|---|---|
| Sigmoidal | Deterministic (ODE) Compartmental | cloned from 'Sigmoidal' owned by user shreyasinha28 cloned from 'Sigmoidal' owned by user ModelBrick |
Application - Sigmoidal
| Species | Initial Condition | Diffusion Constant | ||||||
|---|---|---|---|---|---|---|---|---|
| S | t [uM] | 0.0
[um2/s] | R |
1.0
[uM]
|
0.0
[um2/s] | PR |
0.0
[uM]
|
0.0
[um2/s]
|
|
| Name | Reaction Mapping |
|---|---|
| protein_phos | included |
| protein_dephos | included |
| Name | End Time | Output Options |
|---|---|---|
| Simulation0 | 10.0 [s] |
KeepEvery 1 KeepAtMost 1000 |
| Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
|---|---|---|---|---|---|
| Compartmental | Compartment | c0 |
Global Parameters
| Name | Expression |
|---|