Physiology
Reaction Diagram
Cross-References
Annotations
Reactions
Reactions | Name | Structure | Kinetics | Depiction |
---|---|---|---|---|
RPR | protein_phos | c0 | HMMIrreversible | |
PRR | protein_dephos | c0 | HMMIrreversible |
protein_phos Universal ID's
protein_phos Text Annotations
protein_dephos Universal ID's
protein_dephos Text Annotations
Expressions for protein_phos
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]
Expressions for protein_dephos
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]
Species
S Universal ID's
S Text Annotations
R Universal ID's
R Text Annotations
PR Universal ID's
PR Text Annotations
Molecules
R Universal ID's
R Text Annotations
S Universal ID's
S Text Annotations
Observables
Name | Structure | Count | BNGL Definition | Sequence Type | DEPICTION |
---|---|---|---|---|---|
O0_R_tot | c0 | Molecules | R(mod!?,). | Multimolecular | |
O0_S_tot | c0 | Molecules | S(). | Multimolecular |
O0_R_tot Universal ID's
O0_R_tot Text Annotations
O0_S_tot Universal ID's
O0_S_tot Text Annotations
Applications
Name | Properties | Math Type | Annotation |
---|---|---|---|
Sigmoidal |
Specs -
Species Specs - Reaction Simulations |
Deterministic (ODE) Compartmental | cloned from 'Sigmoidal' owned by user shreyasinha28 cloned from 'Sigmoidal' owned by user ModelBrick |
Sigmoidal Universal ID's
Sigmoidal Text Annotations
Specifications (Species) - Sigmoidal go to Simulations
Specifications (Reaction) - Sigmoidal go to Simulations
Simulations - Sigmoidal go to Specifications
Name | End Time | Output Options |
---|---|---|
Simulation0 | 10.0 |
KeepEvery 1 KeepAtMost 1000 |
Sigmoidal Universal ID's
Sigmoidal Text Annotations
Assignments
Name | Variable | Assignment Function Expression |
---|
Events
Name | Trigger Type | Variable Assignment |
---|
Geometry non-spatial1821159797
(Origin: 0.0, 0.0, 0.0; Extent: 10.0, 10.0, 10.0 [um])
Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
---|---|---|---|---|---|
Compartmental | Compartment | c0 |
Events
Name | Variable | Rate Expression |
---|
Downloads
Model Format | Model Downloads |
---|---|
Virtual Cell Markup Language | VCML File |
PDF Report | Report |
COMBINE Archive | OMEX File |
SEDML | SEDML File |
File Format | Application Downloads |
BNGL | Sigmoidal.bngl |
SBML | Sigmoidal.sbml |
Matlab | Sigmoidal.m |
NFSim XML | Sigmoidal.xml |