ModelBricks - Model Print Page

Name - Boras_PKA-Dimer_mutant_A-inhibited

BioModel ID - 91141200

Reaction Diagram

Physiology

Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
PKA_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_BBB_Unnamed_compartment	reaction21 Unnamed compartment	MassAction	PKA_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_BBB_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_Unnamed_compartment) * cAMP_Unnamed_compartment) - (Kr * PKA_BBB_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): F_B_binding[s-1.uM-1] reverse rate constant (Kr): (B_kd * F_B_binding)[s-1]
PKA_BBB_Unnamed_compartment+C_Unnamed_compartmentPKA_C_BB_Unnamed_compartment	r0 Unnamed compartment	MassAction	PKA_BBB_Unnamed_compartment+C_Unnamed_compartmentPKA_C_BB_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_BBB_Unnamed_compartment) * C_Unnamed_compartment) - (Kr * PKA_C_BB_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (C_kr / C_kd)[s-1.uM-1] reverse rate constant (Kr): (C_kr * F1)[s-1]
C_Unnamed_compartment+PKA_Unnamed_compartmentPKA_C_Unnamed_compartment	reaction5 Unnamed compartment	MassAction	C_Unnamed_compartment+PKA_Unnamed_compartmentPKA_C_Unnamed_compartment
		reaction rate (J): (((Kf * C_Unnamed_compartment) * PKA_Unnamed_compartment) - (Kr * PKA_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (C_kr / C_kd)[s-1.uM-1] reverse rate constant (Kr): C_kr[s-1]
PKA_C_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_C_BB_Unnamed_compartment	reaction6 Unnamed compartment	MassAction	PKA_C_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_C_BB_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_C_Unnamed_compartment) * cAMP_Unnamed_compartment) - (Kr * PKA_C_BB_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): F_B_binding[s-1.uM-1] reverse rate constant (Kr): (F1 * B_kd * F_B_binding)[s-1]

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

Species See in Dashboard
Name	Structure	BioNetGen Definition
cAMP_Unnamed_compartment	Unnamed compartment

PKA_Unnamed_compartment	Unnamed compartment

PKA_C_BB_Unnamed_compartment	Unnamed compartment

PKA_BBB_Unnamed_compartment	Unnamed compartment

C_Unnamed_compartment	Unnamed compartment

PKA_C_Unnamed_compartment	Unnamed compartment

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
test	Deterministic (ODE) Compartmental

Application - test

Specifications(Species) - test See in Dashboard
Species	Initial Condition	Diffusion Constant
cAMP_Unnamed_compartment	200.0 [uM]	0.0 [um2/s]
PKA_Unnamed_compartment	0.025 [uM]	0.0 [um2/s]
PKA_C_BB_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_BBB_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
C_Unnamed_compartment	5.025 [uM]	0.0 [um2/s]
PKA_C_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]

Specifications(Reaction) - test See in Dashboard
Name	Reaction Mapping
reaction21	included
r0	included
reaction5	included
reaction6	included

Simulations - test See in Dashboard
Name	End Time	Output Options
Simulation0	1200.0 [s]	KeepEvery 20 KeepAtMost 6000
Copy of Simulation0	500000.0 [s]	KeepEvery 20 KeepAtMost 6000
Copy of Copy of Simulation0	500000.0 [s]	KeepEvery 20 KeepAtMost 6000
More points Holo	500000.0 [s]	KeepEvery 20 KeepAtMost 6000
More points free R	500000.0 [s]	KeepEvery 20 KeepAtMost 6000

Geometry non-spatial1833399091 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			Unnamed compartment

Global Parameters

Global Parameters See in Dashboard
Name	Expression
F_B_binding	3.175[uM-1.s-1]

B_kd	4.16E-4[tbd]

B_factor	5.0[tbd]

F_A_binding	0.3[uM-1.s-1]

A_kd	0.007473[tbd]

A_factor	23.0[tbd]

C_kr	2.3[s-1]

C_kd	4.397E-7[uM]

Vm	0.31[s-1]

Kf_A	0.08[1]

Kr_A	0.012[s-1]

Kf_B	0.082[1]

Kr_B	2.21E-4[s-1]

Factor	50000.0[1]

FreeR_factor	0.0[uM-1.s-1]

F1	3218.4[1]

F2	264.0[tbd]

F3	0.0[tbd]