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Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
cAMP_Unnamed_compartment+PKA_B_A_C_Unnamed_compartmentPKA_BB_AA_C_Unnamed_compartment	reaction9 Unnamed compartment	MassAction	cAMP_Unnamed_compartment+PKA_B_A_C_Unnamed_compartmentPKA_BB_AA_C_Unnamed_compartment
		reaction rate (J): (((Kf * cAMP_Unnamed_compartment) * PKA_B_A_C_Unnamed_compartment) - (Kr * PKA_BB_AA_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): F_A_binding[s-1.uM-1] reverse rate constant (Kr): (F7 * A2_kd * F_A_binding)[s-1]
PKA_B_Unnamed_compartment+C_Unnamed_compartmentPKA_B_C_Unnamed_compartment	r2 Unnamed compartment	MassAction	PKA_B_Unnamed_compartment+C_Unnamed_compartmentPKA_B_C_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_B_Unnamed_compartment) * C_Unnamed_compartment) - (Kr * PKA_B_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (2.0 * C_kr2)[s-1.uM-1] reverse rate constant (Kr): (F1 * C_kr2 * C_kd)[s-1]
PKA_B_C2_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_B_A_C2_Unnamed_compartment	reaction15 Unnamed compartment	MassAction	PKA_B_C2_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_B_A_C2_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_B_C2_Unnamed_compartment) * cAMP_Unnamed_compartment) - (Kr * PKA_B_A_C2_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (2.0 * F_A_binding)[s-1.uM-1] reverse rate constant (Kr): (F1 * F2 * A_kd * F_A_binding)[s-1]
cAMP_Unnamed_compartment+PKA_B_A_Unnamed_compartmentPKA_AA_BB_Unnamed_compartment	reaction8 Unnamed compartment	MassAction	cAMP_Unnamed_compartment+PKA_B_A_Unnamed_compartmentPKA_AA_BB_Unnamed_compartment
		reaction rate (J): (((Kf * cAMP_Unnamed_compartment) * PKA_B_A_Unnamed_compartment) - (Kr * PKA_AA_BB_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): F_A_binding[s-1.uM-1] reverse rate constant (Kr): (2.0 * A2_kd * F_A_binding)[s-1]
C_Unnamed_compartment+PKA_B_A_C_Unnamed_compartmentPKA_B_A_C2_Unnamed_compartment	reaction1 Unnamed compartment	MassAction	C_Unnamed_compartment+PKA_B_A_C_Unnamed_compartmentPKA_B_A_C2_Unnamed_compartment
		reaction rate (J): (((Kf * C_Unnamed_compartment) * PKA_B_A_C_Unnamed_compartment) - (Kr * PKA_B_A_C2_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): C_kr3[s-1.uM-1] reverse rate constant (Kr): (F4 * F2 * C_kd2 * C_kr3)[s-1]
PKA_B_A_Unnamed_compartment+C_Unnamed_compartmentPKA_B_A_C_Unnamed_compartment	reaction4 Unnamed compartment	MassAction	PKA_B_A_Unnamed_compartment+C_Unnamed_compartmentPKA_B_A_C_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_B_A_Unnamed_compartment) * C_Unnamed_compartment) - (Kr * PKA_B_A_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): C_kr3[s-1.uM-1] reverse rate constant (Kr): (F1 * F3 * C_kr3 * C_kd)[s-1]
PKA_B_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_B_A_Unnamed_compartment	reaction7 Unnamed compartment	MassAction	PKA_B_Unnamed_compartment+cAMP_Unnamed_compartmentPKA_B_A_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_B_Unnamed_compartment) * cAMP_Unnamed_compartment) - (Kr * PKA_B_A_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (2.0 * F_A_binding)[s-1.uM-1] reverse rate constant (Kr): (A_kd * F_A_binding)[s-1]
cAMP_Unnamed_compartment+PKA_B_C_Unnamed_compartmentPKA_B_A_C_Unnamed_compartment	reaction18 Unnamed compartment	MassAction	cAMP_Unnamed_compartment+PKA_B_C_Unnamed_compartmentPKA_B_A_C_Unnamed_compartment
		reaction rate (J): (((Kf * cAMP_Unnamed_compartment) * PKA_B_C_Unnamed_compartment) - (Kr * PKA_B_A_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): F_A_binding[s-1.uM-1] reverse rate constant (Kr): (F1 * A_kd * F_A_binding)[s-1]
PKA_B_C_Unnamed_compartment+C_Unnamed_compartmentPKA_B_C2_Unnamed_compartment	r1 Unnamed compartment	MassAction	PKA_B_C_Unnamed_compartment+C_Unnamed_compartmentPKA_B_C2_Unnamed_compartment
		reaction rate (J): (((Kf * PKA_B_C_Unnamed_compartment) * C_Unnamed_compartment) - (Kr * PKA_B_C2_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): C_kr2[s-1.uM-1] reverse rate constant (Kr): (2.0 * F2 * C_kd2 * C_kr2)[s-1]
C_Unnamed_compartment+PKA_AA_BB_Unnamed_compartmentPKA_BB_AA_C_Unnamed_compartment	reaction3 Unnamed compartment	MassAction	C_Unnamed_compartment+PKA_AA_BB_Unnamed_compartmentPKA_BB_AA_C_Unnamed_compartment
		reaction rate (J): (((Kf * C_Unnamed_compartment) * PKA_AA_BB_Unnamed_compartment) - (Kr * PKA_BB_AA_C_Unnamed_compartment))[uM.s-1] forward rate constant (Kf): (2.0 * C_kr5)[s-1.uM-1] reverse rate constant (Kr): (F3 * C_kd * C_kr5 * F1 * F7)[s-1]

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

Species See in Dashboard
Name	Structure	BioNetGen Definition
PKA_B_C2_Unnamed_compartment	Unnamed compartment

PKA_AA_BB_Unnamed_compartment	Unnamed compartment

PKA_B_Unnamed_compartment	Unnamed compartment

PKA_B_C_Unnamed_compartment	Unnamed compartment

C_Unnamed_compartment	Unnamed compartment

PKA_BB_AA_C_Unnamed_compartment	Unnamed compartment

PKA_B_A_C2_Unnamed_compartment	Unnamed compartment

PKA_B_A_C_Unnamed_compartment	Unnamed compartment

cAMP_Unnamed_compartment	Unnamed compartment

PKA_B_A_Unnamed_compartment	Unnamed compartment

Molecules See in Dashboard
Name	Text Annotations	BioNetGen Definition

Observables See in Dashboard
Name	Type Count	BioNetGen Definition

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

Specifications(Species) - test See in Dashboard
Species	Initial Condition	Diffusion Constant
PKA_B_C2_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_AA_BB_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_B_Unnamed_compartment	0.0125 [uM]	0.0 [um2/s]
PKA_B_C_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
C_Unnamed_compartment	5.025 [uM]	0.0 [um2/s]
PKA_BB_AA_C_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_B_A_C2_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_B_A_C_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
cAMP_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]
PKA_B_A_Unnamed_compartment	0.0 [uM]	0.0 [um2/s]

Specifications(Reaction) - test See in Dashboard
Name	Reaction Mapping
reaction9	included
r2	included
reaction15	included
reaction8	included
reaction1	included
reaction4	included
reaction7	included
reaction18	included
r1	included
reaction3	included

Simulations - test See in Dashboard
Name	End Time	Output Options
Simulation0	1200.0 [s]	KeepEvery 20 KeepAtMost 6000
Copy of Simulation0	5000000.0 [s]	KeepEvery 20 KeepAtMost 6000
Copy of Copy of Simulation0	5000000.0 [s]	KeepEvery 20 KeepAtMost 6000
free R more points	5000000.0 [s]	KeepEvery 20 KeepAtMost 6000
Holo more points	5000000.0 [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 See in Dashboard
Name	Expression
F_B_binding	0.003175[uM-1.s-1]

B_kd	0.324[tbd]

B_factor	5.0[tbd]

F_A_binding	0.003[uM-1.s-1]

A_kd	8.34E-7[tbd]

A_factor	23.0[tbd]

C_kr	0.0023[s-1]

C_kd	3.14E-8[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]

B1_factor	1.0[tbd]

A1_factor	226.0[tbd]

A2_factor	151.0[tbd]

B2_factor	602.0[tbd]

A2_kd	3.52E-5[tbd]

spots	2.0[uM]

R_A_factor	1.0[tbd]

R_B_factor	1.0[tbd]

F2	1.0[tbd]

F1	1.0[tbd]

F3	185.0[tbd]

F4	125000.0[tbd]

C_kd2	1.96E-5[uM]

C_kr2	5.0[uM-1.s-1]

C_kr3	5.0[uM-1.s-1]

C_kr4	0.0[uM-1.s-1]

C_kr5	5.0[uM-1.s-1]

F7	218000.0[tbd]

Name - Boras_PKA_CBD-A_mutant_B-inhibited

BioModel ID - 91164682

Reaction Diagram

Physiology

Applications

Application - test

Global Parameters