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Name - Rho_GDP_GTP_exchange

BioModel ID - 210773418

Reaction Diagram

reactionDiagram

Physiology

Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
RhoGTP+EffectorEffector_RhoGTP	Effector_activation default	GeneralKinetics	RhoGTP+EffectorEffector_RhoGTP
		reaction rate (J): ((k8 * RhoGTP * Effector) - (k9 * Effector_RhoGTP))[umol.l-1.min-1]
RhoGTPRhoGDP	RhoGTP_to_RhoGDP default	GeneralKinetics	RhoGTPRhoGDP
		reaction rate (J): (kcatGAP * RhoGTP * GAP / ((KmGAPRho * (1.0 + (on5 * GDI / KmGAPGDI))) + (RhoGTP * (1.0 + (on5 * GDI / KmGAPGDI)))))[umol.l-1.min-1] user defined (on5): 1.0[1]
RhoGDPRhoGTP	RhoGDP_to_RhoGTP default	GeneralKinetics	RhoGDPRhoGTP
		reaction rate (J): (kcatGEF * RhoGDP * Active_GEF / ((KmGEFRho * (1.0 + (on4 * GDI / KmGEFGDI))) + (RhoGDP * (1.0 + (on4 * GDI / KmGEFGDI)))))[umol.l-1.min-1] user defined (on4): 1.0[1]

Structures See in Dashboard
Name	Type Electrical (Membrane Polarity)
default	Compartment (+) (-)

Species See in Dashboard
Name	Structure	BioNetGen Definition
Active_GEF	default	RhoGEF(Active~yes!-,).

RhoGDP	default	G_protein(State~GDP!-,GDI!-,Effector!-,).

RhoGTP	default	G_protein(State~GTP!-,GDI!-,Effector!-,).

GDI	default	GDI(Rho!-,).

GAP	default	RhoGAP().

Effector	default	Effector(Rho!-,Active~no!-,).

Effector_RhoGTP	default	G_protein(State~GTP!-,GDI!-,Effector!1,).Effector(Rho!1,Active~yes!-,).

Molecules See in Dashboard
Name	Text Annotations	BioNetGen Definition
RhoGEF	Text Annotations	RhoGEF(Active~no~yes,)

G_protein	Text Annotations	G_protein(State~GTP~GDP,GDI,Effector,)

GDI	Text Annotations	GDI(Rho,)

RhoGAP	Text Annotations	RhoGAP()

Effector	Text Annotations	Effector(Rho,Active~yes~no,)

Observables See in Dashboard
Name	Type Count	BioNetGen Definition
O0_RhoGEF_tot	Molecules Multimolecular	RhoGEF(Active!?,).

O0_G_protein_tot	Molecules Multimolecular	G_protein(State!?,GDI!?,Effector!?,).

O0_GDI_tot	Molecules Multimolecular	GDI(Rho!?,).

O0_RhoGAP_tot	Molecules Multimolecular	RhoGAP().

O0_Effector_tot	Molecules Multimolecular	Effector(Rho!?,Active!?,).

Applications

Applications See in Dashboard
Name	Math Type	Annotation
GDI_integrated	Deterministic (ODE) Compartmental

Application - GDI_integrated

Specifications(Species) - GDI_integrated See in Dashboard
Species	Initial Condition	Diffusion Constant
Active_GEF	0.31 [umol]	0.0 [m2/min]
RhoGDP	1.3 [umol]	0.0 [m2/min]
RhoGTP	0.0 [umol]	0.0 [m2/min]
GDI	0.7 [umol]	0.0 [m2/min]
GAP	0.1 [umol]	0.0 [m2/min]
Effector	1.0 [umol]	0.0 [m2/min]
Effector_RhoGTP	0.0 [umol]	0.0 [m2/min]

Specifications(Reaction) - GDI_integrated See in Dashboard
Name	Reaction Mapping
Effector_activation	included
RhoGTP_to_RhoGDP	included
RhoGDP_to_RhoGTP	included

Simulations - GDI_integrated See in Dashboard
Name	End Time	Output Options
Simulation0	600.0 [min]	KeepEvery 1 KeepAtMost 1000

Geometry Compartmental1055847981 See in Dashboard
(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

Global Parameters

Global Parameters See in Dashboard
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]