Reaction Diagram
Physiology
| Universal ID's | Text Annotations |
|---|---|
|
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|
| Reaction |
Name
Structure
|
Kinetics | Depiction |
|---|---|---|---|
| RhoGDP+GDIGDI_RhoGDP |
RhoGDP_GDI_binding
default
|
GeneralKinetics | RhoGDP+GDIGDI_RhoGDP |
|
|
|
reaction rate (J): ((k4 * RhoGDP * GDI) - (k5 * GDI_RhoGDP))[umol.l-1.min-1]
|
|
| RhoGTP+GDIGDI_RhoGTP |
RhoGTP_GDI_binding
default
|
GeneralKinetics | RhoGTP+GDIGDI_RhoGTP |
|
|
|
reaction rate (J): ((k6 * RhoGTP * GDI) - (k7 * GDI_RhoGTP))[umol.l-1.min-1]
|
| Name |
Type
Electrical (Membrane Polarity)
|
|---|---|
| default |
Compartment
(+) (-)
|
|
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|
| Name | Structure | BioNetGen Definition |
|---|---|---|
| RhoGDP | default | G_protein(State~GDP!-,GDI!-,Effector!-,). |
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| RhoGTP | default | G_protein(State~GTP!-,GDI!-,Effector!-,). |
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| GDI | default | GDI(Rho!-,). |
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| GDI_RhoGDP | default | G_protein(State~GDP!-,GDI!1,Effector!-,).GDI(Rho!1,). |
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| GDI_RhoGTP | default | G_protein(State~GTP!-,GDI!1,Effector!-,).GDI(Rho!1,). |
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| Name | Text Annotations | BioNetGen Definition |
|---|---|---|
| G_protein | Text Annotations | G_protein(State~GTP~GDP,GDI,Effector,) |
|
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| GDI | Text Annotations | GDI(Rho,) |
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|
| Name |
Type
Count
|
BioNetGen Definition |
|---|---|---|
| O0_G_protein_tot |
Molecules Multimolecular |
G_protein(State!?,GDI!?,Effector!?,). |
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| O0_GDI_tot |
Molecules Multimolecular |
GDI(Rho!?,). |
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Applications
| Name | Math Type | Annotation |
|---|---|---|
| Application | Deterministic (ODE) Compartmental |
Application - Application
| Species | Initial Condition | Diffusion Constant | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| RhoGDP | 1.0 [umol] | 0.0
[m2/min] | RhoGTP |
1.0
[umol]
|
0.0
[m2/min] | GDI |
0.7
[umol]
|
0.0
[m2/min] | GDI_RhoGDP |
0.0
[umol]
|
0.0
[m2/min] | GDI_RhoGTP |
0.0
[umol]
|
0.0
[m2/min]
|
|
| Name | Reaction Mapping |
|---|---|
| RhoGDP_GDI_binding | included |
| RhoGTP_GDI_binding | included |
| Name | End Time | Output Options |
|---|---|---|
| Simulation0 | 600.0 [min] |
KeepEvery 1 KeepAtMost 1000 |
| Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
|---|---|---|---|---|---|
| Compartmental | Compartment | default |
Global Parameters
| Name | Expression |
|---|---|
| k3 | 0.5[min-1] |
|
|
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| k2 | 0.1[min-1] |
|
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| kcatGEF | 5.64[min-1] |
|
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|
| KmGEFRho | 24.5[umol.l-1] |
|
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| KmGEFGDI | 1.0[umol.l-1] |
|
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|
| k1 | 1.0[l.umol-1.min-1] |
|
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| kcatGAP | 95.9[min-1] |
|
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| KmGAPGDI | 0.1[umol.l-1] |
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| KmGAPRho | 4.48[umol.l-1] |
|
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| k5 | 0.05[min-1] |
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| k4 | 0.5[l.umol-1.min-1] |
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| k6 | 0.5[l.umol-1.min-1] |
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| k7 | 0.05[min-1] |
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| k8 | 28.2[l.umol-1.min-1] |
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| k9 | 0.18[min-1] |
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