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Name - Histamine-RhoA Model_Final3

BioModel ID - 174341395

Reaction Diagram

Physiology

Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
Histamine+H1HR_inactH1HR_act	r0 c0	MassAction	Histamine+H1HR_inactH1HR_act
		reaction rate (J): (((Kf * Histamine) * H1HR_inact) - (Kr * H1HR_act))[uM.s-1] forward rate constant (Kf): 1.0E-4[s-1.uM-1] reverse rate constant (Kr): 0.001[s-1]
Gaq_inact+H1HR_actGaq_act	r1 c0	MassAction	Gaq_inact+H1HR_actGaq_act
		reaction rate (J): (((Kf * Gaq_inact) * H1HR_act) - (Kr * Gaq_act))[uM.s-1] forward rate constant (Kf): 0.015[s-1.uM-1] reverse rate constant (Kr): 7.2[s-1]
Gaq_act+PLC_inactPLC_act	r2 c0	MassAction	Gaq_act+PLC_inactPLC_act
		reaction rate (J): (((Kf * Gaq_act) * PLC_inact) - (Kr * PLC_act))[uM.s-1] forward rate constant (Kf): 0.0042[s-1.uM-1] reverse rate constant (Kr): 1.0[s-1]
Gaq_act+p63_inactp63_act	r3 c0	MassAction	Gaq_act+p63_inactp63_act
		reaction rate (J): (((Kf * Gaq_act) * p63_inact) - (Kr * p63_act))[uM.s-1] forward rate constant (Kf): 0.04[s-1.uM-1] reverse rate constant (Kr): 0.5[s-1]
RhoA_inactRhoA_act	r4 c0	HMMIrreversible	RhoA_inactRhoA_act
		reaction rate (J): ((Vmax * RhoA_inact) / (Km + RhoA_inact))[uM.s-1] Km (1/2 max) (Km): 10.0[uM] max reaction rate (Vmax): (1.0 * p63_act)[uM.s-1]
PIP2DAG+IP3	r5 c0	HMMIrreversible	PIP2DAG+IP3
		reaction rate (J): ((Vmax * PIP2) / (Km + PIP2))[uM.s-1] Km (1/2 max) (Km): 1.55[uM] max reaction rate (Vmax): (800.0 * PLC_act)[uM.s-1]
Ca_ERCa_cyto	r6 c0	HMMIrreversible	Ca_ERCa_cyto
		reaction rate (J): ((Vmax * Ca_ER) / (Km + Ca_ER))[uM.s-1] Km (1/2 max) (Km): 0.0813[uM] max reaction rate (Vmax): (10.0 * IP3)[uM.s-1]
p115_inactp115_act	r8 c0	HMMIrreversible	p115_inactp115_act
		reaction rate (J): ((Vmax * p115_inact) / (Km + p115_inact))[uM.s-1] Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): (1.0 * PKC_act_translocate)[uM.s-1]
RhoA_inactRhoA_act	r9 c0	HMMIrreversible	RhoA_inactRhoA_act
		reaction rate (J): ((Vmax * RhoA_inact) / (Km + RhoA_inact))[uM.s-1] Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): (0.5 * p115_act)[uM.s-1]
Ca_cytoCa_miscbound	r10 c0	MassAction	Ca_cytoCa_miscbound
		reaction rate (J): ((Kf * Ca_cyto) - (Kr * Ca_miscbound))[uM.s-1] forward rate constant (Kf): 2.43[s-1] reverse rate constant (Kr): 1.0[s-1]
Ca_cytoCa_ER	r11 c0	HMMIrreversible	Ca_cytoCa_ER
		reaction rate (J): ((Vmax * Ca_cyto) / (Km + Ca_cyto))[uM.s-1] Km (1/2 max) (Km): 114.0[uM] max reaction rate (Vmax): (0.754 * SERCA)[uM.s-1]
p115_actp115_inact	r13 c0	HMMIrreversible	p115_actp115_inact
		reaction rate (J): ((Vmax * p115_act) / (Km + p115_act))[uM.s-1] Km (1/2 max) (Km): 8.25[uM] max reaction rate (Vmax): (0.0364 * phosphatase)[uM.s-1]
RhoA_actRhoA_inact	r12 c0	HMMIrreversible	RhoA_actRhoA_inact
		reaction rate (J): ((Vmax * RhoA_act) / (Km + RhoA_act))[uM.s-1] Km (1/2 max) (Km): 2.31[uM] max reaction rate (Vmax): (0.0541 * GAP_act)[uM.s-1]
Ca_cytoCa_mito	r14 c0	MassAction	Ca_cytoCa_mito
		reaction rate (J): ((Kf * Ca_cyto) - (Kr * Ca_mito))[uM.s-1] forward rate constant (Kf): 0.506[s-1] reverse rate constant (Kr): 0.476[s-1]
Ca_cytoCa_Ex	r15 c0	HMMIrreversible	Ca_cytoCa_Ex
		reaction rate (J): ((Vmax * Ca_cyto) / (Km + Ca_cyto))[uM.s-1] Km (1/2 max) (Km): 0.52[uM] max reaction rate (Vmax): (0.26 * Expumps_out)[uM.s-1]
Ca_ER	r16 c0	MassAction	Ca_ER
		reaction rate (J): (Kf * Ca_ER)[uM.s-1] forward rate constant (Kf): 0.0[s-1] reverse rate constant (Kr): 0.0[uM.s-1]
Ca_cyto+PKC_inactPKC_Ca	r7 c0	MassAction	Ca_cyto+PKC_inactPKC_Ca
		reaction rate (J): (((Kf * Ca_cyto) * PKC_inact) - (Kr * PKC_Ca))[uM.s-1] forward rate constant (Kf): 0.02[s-1.uM-1] reverse rate constant (Kr): 50.0[s-1]
DAG+PKC_CaPKC_act	r20 c0	MassAction	DAG+PKC_CaPKC_act
		reaction rate (J): (((Kf * DAG) * PKC_Ca) - (Kr * PKC_act))[uM.s-1] forward rate constant (Kf): 1.5E-5[s-1.uM-1] reverse rate constant (Kr): 0.15[s-1]
Gaq_actGaq_inact	r17 c0	MassAction	Gaq_actGaq_inact
		reaction rate (J): ((Kf * Gaq_act) - (Kr * Gaq_inact))[uM.s-1] forward rate constant (Kf): (1.0 * PLC_act)[s-1] reverse rate constant (Kr): 0.0[s-1]
Ca_ExCa_cyto	r21 c0	HMMIrreversible	Ca_ExCa_cyto
		reaction rate (J): ((Vmax * Ca_Ex) / (Km + Ca_Ex))[uM.s-1] Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): (0.1 * Expumps_in)[uM.s-1]
Expumps_in+Ca_cytoExpumps_out	r23 c0	MassAction	Expumps_in+Ca_cytoExpumps_out
		reaction rate (J): (((Kf * Expumps_in) * Ca_cyto) - (Kr * Expumps_out))[uM.s-1] forward rate constant (Kf): 1.0E-4[s-1.uM-1] reverse rate constant (Kr): 0.0[s-1]
Ca_Ex+Expumps_outExpumps_in	r24 c0	MassAction	Ca_Ex+Expumps_outExpumps_in
		reaction rate (J): (((Kf * Ca_Ex) * Expumps_out) - (Kr * Expumps_in))[uM.s-1] forward rate constant (Kf): 1.0E-4[s-1.uM-1] reverse rate constant (Kr): 0.0[s-1]
Ca_ERCa_cyto	r22 c0	MassAction	Ca_ERCa_cyto
		reaction rate (J): ((Kf * Ca_ER) - (Kr * Ca_cyto))[uM.s-1] forward rate constant (Kf): 0.00203[s-1] reverse rate constant (Kr): 0.0[s-1]
Pyrilamine+H1HR_actH1HR_inact	r26 c0	MassAction	Pyrilamine+H1HR_actH1HR_inact
		reaction rate (J): (((Kf * Pyrilamine) * H1HR_act) - (Kr * H1HR_inact))[uM.s-1] forward rate constant (Kf): 1.0[s-1.uM-1] reverse rate constant (Kr): 1.0[s-1]
PKC_actPKC_act_translocate	r27 c0	MassAction	PKC_actPKC_act_translocate
		reaction rate (J): ((Kf * PKC_act) - (Kr * PKC_act_translocate))[uM.s-1] forward rate constant (Kf): 0.02[s-1] reverse rate constant (Kr): 0.01[s-1]
GDI_inactGDI_act	r28 c0	HMMIrreversible	GDI_inactGDI_act
		reaction rate (J): ((Vmax * GDI_inact) / (Km + GDI_inact))[uM.s-1] Km (1/2 max) (Km): 8.25[uM] max reaction rate (Vmax): (0.0364 * phosphatase)[uM.s-1]
GDI_actGDI_inact	r30 c0	HMMIrreversible	GDI_actGDI_inact
		reaction rate (J): ((Vmax * GDI_act) / (Km + GDI_act))[uM.s-1] Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): (1.0 * PKC_act_translocate)[uM.s-1]
GAP_inactGAP_act	r25 c0	HMMIrreversible	GAP_inactGAP_act
		reaction rate (J): ((Vmax * GAP_inact) / (Km + GAP_inact))[uM.s-1] Km (1/2 max) (Km): 8.25[uM] max reaction rate (Vmax): (0.0364 * phosphatase)[uM.s-1]
GAP_actGAP_inact	r29 c0	HMMIrreversible	GAP_actGAP_inact
		reaction rate (J): ((Vmax * GAP_act) / (Km + GAP_act))[uM.s-1] Km (1/2 max) (Km): 1.0[uM] max reaction rate (Vmax): (1.0 * PKC_act_translocate)[uM.s-1]
RhoA_actRhoA_inact	r31 c0	HMMIrreversible	RhoA_actRhoA_inact
		reaction rate (J): ((Vmax * RhoA_act) / (Km + RhoA_act))[uM.s-1] Km (1/2 max) (Km): 17.0[uM] max reaction rate (Vmax): (0.0242 * GDI_act)[uM.s-1]
DAGDAG_deg	r18 c0	MassAction	DAGDAG_deg
		reaction rate (J): ((Kf * DAG) - (Kr * DAG_deg))[uM.s-1] forward rate constant (Kf): 1.5E-7[s-1] reverse rate constant (Kr): 0.0[s-1]

Structures See in Dashboard
Name	Type Electrical (Membrane Polarity)
c0	Compartment (+) (-)

Species See in Dashboard
Name	Structure	BioNetGen Definition
Gaq_act	c0

H1HR_act	c0

Histamine	c0

p63_act	c0

PLC_act	c0

PIP2	c0

DAG	c0

IP3	c0

RhoA_act	c0

Ca_cyto	c0

PKC_act	c0

p115_act	c0

RhoA_inact	c0

H1HR_inact	c0

Gaq_inact	c0

p63_inact	c0

p115_inact	c0

PKC_inact	c0

Ca_ER	c0

PLC_inact	c0

Ca_miscbound	c0

Ca_mito	c0

Ca_Ex	c0

phosphatase	c0

GAP_act	c0

SERCA	c0

PKC_Ca	c0

Expumps_out	c0

Expumps_in	c0

Pyrilamine	c0

PKC_act_translocate	c0

GDI_act	c0

GDI_inact	c0

GAP_inact	c0

DAG_deg	c0

Molecules See in Dashboard
Name	Text Annotations	BioNetGen Definition

Observables See in Dashboard
Name	Type Count	BioNetGen Definition

Applications

Applications See in Dashboard
Name	Math Type	Annotation
Application1	Deterministic (ODE) Compartmental

Application - Application1

Specifications(Species) - Application1 See in Dashboard
Species	Initial Condition	Diffusion Constant
Gaq_act	0.0 [uM]	0.0 [um2/s]
H1HR_act	0.0 [uM]	0.0 [um2/s]
Histamine	100.0 [uM]	0.0 [um2/s]
p63_act	0.0 [uM]	0.0 [um2/s]
PLC_act	0.0 [uM]	0.0 [um2/s]
PIP2	48.0 [uM]	0.0 [um2/s]
DAG	0.72 [uM]	0.0 [um2/s]
IP3	1.2 [uM]	0.0 [um2/s]
RhoA_act	0.0 [uM]	0.0 [um2/s]
Ca_cyto	0.1 [uM]	0.0 [um2/s]
PKC_act	0.0 [uM]	0.0 [um2/s]
p115_act	0.0 [uM]	0.0 [um2/s]
RhoA_inact	50.0 [uM]	0.0 [um2/s]
H1HR_inact	5.0 [uM]	0.0 [um2/s]
Gaq_inact	3.5 [uM]	0.0 [um2/s]
p63_inact	1.0 [uM]	0.0 [um2/s]
p115_inact	0.02 [uM]	0.0 [um2/s]
PKC_inact	15.0 [uM]	0.0 [um2/s]
Ca_ER	500.0 [uM]	0.0 [um2/s]
PLC_inact	1.0 [uM]	0.0 [um2/s]
Ca_miscbound	0.0 [uM]	0.0 [um2/s]
Ca_mito	0.0 [uM]	0.0 [um2/s]
Ca_Ex	0.0 [uM]	0.0 [um2/s]
phosphatase	0.5 [uM]	0.0 [um2/s]
GAP_act	3.0 [uM]	0.0 [um2/s]
SERCA	15.0 [uM]	0.0 [um2/s]
PKC_Ca	0.0 [uM]	0.0 [um2/s]
Expumps_out	15.6 [uM]	0.0 [um2/s]
Expumps_in	0.01 [uM]	0.0 [um2/s]
Pyrilamine	0.0 [uM]	0.0 [um2/s]
PKC_act_translocate	0.0 [uM]	0.0 [um2/s]
GDI_act	0.5 [uM]	0.0 [um2/s]
GDI_inact	0.0 [uM]	0.0 [um2/s]
GAP_inact	0.0 [uM]	0.0 [um2/s]
DAG_deg	0.0 [uM]	0.0 [um2/s]

Specifications(Reaction) - Application1 See in Dashboard
Name	Reaction Mapping
r0	included
r1	included
r2	included
r3	included
r4	included
r5	included
r6	included
r8	included
r9	included
r10	included
r11	included
r13	included
r12	included
r14	included
r15	included
r16	included
r7	included
r20	included
r17	included
r21	included
r23	included
r24	included
r22	included
r26	included
r27	included
r28	included
r30	included
r25	included
r29	included
r31	included
r18	included

Simulations - Application1 See in Dashboard
Name	End Time	Output Options
Simulation 1	3000.0 [s]	OutputTimeStep 30.0

Events - Application1 See in Dashboard
Name	Trigger Type	Variable Assignment
event0	at time 1200.0	Pyrilamine --> 100.0

Geometry non-spatial1830893501 See in Dashboard
(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

Global Parameters

Global Parameters See in Dashboard
Name	Expression