Physiology
Reaction Diagram
Cross-References
Annotations
Reactions
Reactions | Name | Structure | Kinetics | Depiction |
---|---|---|---|---|
RhoGDP+GDIGDI_RhoGDP | RhoGDP_GDI_binding | default | GeneralKinetics | |
RhoGTP+GDIGDI_RhoGTP | RhoGTP_GDI_binding | default | GeneralKinetics |
RhoGDP_GDI_binding Universal ID's
RhoGDP_GDI_binding Text Annotations
RhoGTP_GDI_binding Universal ID's
RhoGTP_GDI_binding Text Annotations
Expressions for RhoGDP_GDI_binding
reaction rate
J
((k4 * RhoGDP * GDI) - (k5 * GDI_RhoGDP)) [umol.l-1.min-1]
global
k5
0.05 [min-1]
global
k4
0.5 [l.umol-1.min-1]
Expressions for RhoGTP_GDI_binding
reaction rate
J
((k6 * RhoGTP * GDI) - (k7 * GDI_RhoGTP)) [umol.l-1.min-1]
global
k6
0.5 [l.umol-1.min-1]
global
k7
0.05 [min-1]
Structures
Name | Type | Electrical |
---|---|---|
default | Compartment | (+) (-) |
default Universal ID's
default Text Annotations
Species
Name | Structure | BioNetGen Definition | Depiction |
---|---|---|---|
RhoGDP | default | G_protein(State~GDP!-,GDI!-,Effector!-,). | |
RhoGTP | default | G_protein(State~GTP!-,GDI!-,Effector!-,). | |
GDI | default | GDI(Rho!-,). | |
GDI_RhoGDP | default | G_protein(State~GDP!-,GDI!1,Effector!-,).GDI(Rho!1,). | |
GDI_RhoGTP | default | G_protein(State~GTP!-,GDI!1,Effector!-,).GDI(Rho!1,). |
RhoGDP Universal ID's
RhoGDP Text Annotations
RhoGTP Universal ID's
RhoGTP Text Annotations
GDI Universal ID's
GDI Text Annotations
GDI_RhoGDP Universal ID's
GDI_RhoGDP Text Annotations
GDI_RhoGTP Universal ID's
GDI_RhoGTP Text Annotations
Molecules
G_protein Universal ID's
G_protein Text Annotations
GDI Universal ID's
GDI Text Annotations
Observables
Name | Structure | Count | BNGL Definition | Sequence Type | DEPICTION |
---|---|---|---|---|---|
O0_G_protein_tot | default | Molecules | G_protein(State!?,GDI!?,Effector!?,). | Multimolecular | |
O0_GDI_tot | default | Molecules | GDI(Rho!?,). | Multimolecular |
O0_G_protein_tot Universal ID's
O0_G_protein_tot Text Annotations
O0_GDI_tot Universal ID's
O0_GDI_tot Text Annotations
Applications
Name | Properties | Math Type | Annotation |
---|---|---|---|
Application |
Specs -
Species Specs - Reaction Simulations |
Deterministic (ODE) Compartmental |
Application Universal ID's
Application Text Annotations
Specifications (Species) - Application go to Simulations
Specifications (Reaction) - Application go to Simulations
Simulations - Application go to Specifications
Name | End Time | Output Options |
---|---|---|
Simulation0 | 600.0 |
KeepEvery 1 KeepAtMost 1000 |
Application Universal ID's
Application Text Annotations
Assignments
Name | Variable | Assignment Function Expression |
---|
Events
Name | Trigger Type | Variable Assignment |
---|
Geometry Compartmental1800508731
(Origin: 0.0, 0.0, 0.0; Extent: 10.0, 10.0, 10.0 [m])
Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
---|---|---|---|---|---|
Compartmental | Compartment | default |
Events
Name | Variable | Rate Expression |
---|
Global Parameters
Name | Expression |
---|---|
k3 | 0.5[min-1] |
k2 | 0.1[min-1] |
kcatGEF | 5.64[min-1] |
KmGEFRho | 24.5[umol.l-1] |
KmGEFGDI | 1.0[umol.l-1] |
k1 | 1.0[l.umol-1.min-1] |
kcatGAP | 95.9[min-1] |
KmGAPGDI | 0.1[umol.l-1] |
KmGAPRho | 4.48[umol.l-1] |
k5 | 0.05[min-1] |
k4 | 0.5[l.umol-1.min-1] |
k6 | 0.5[l.umol-1.min-1] |
k7 | 0.05[min-1] |
k8 | 28.2[l.umol-1.min-1] |
k9 | 0.18[min-1] |
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
Universal ID's
Text Annotations
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 | Application.bngl |
SBML | Application.sbml |
Matlab | Application.m |
NFSim XML | Application.xml |