Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Mek Mek_act Mek_Activation cell GeneralKinetics
Mek_act Mek Mek_Deactivation cell GeneralKinetics
Mek Mek_act Mek_Activation_bRaf cell GeneralKinetics

Mek_Activation Universal ID's

Mek_Activation Text Annotations

Mek_Deactivation Universal ID's

Mek_Deactivation Text Annotations

Mek_Activation_bRaf Universal ID's

Mek_Activation_bRaf Text Annotations

Expressions for Mek_Activation

reaction rate

J

(Kcat * Raf1_act * Mek / (km + Mek)) [mmol.ml-1.min-1]

user defined

km

4768350.0 [mmol.ml-1]

user defined

Kcat

185.759 [min-1]

Expressions for Mek_Deactivation

reaction rate

J

(Kcat * PP2A_act * Mek_act / (km + Mek_act)) [mmol.ml-1.min-1]

user defined

km

518753.0 [mmol.ml-1]

user defined

Kcat

2.83243 [min-1]

Expressions for Mek_Activation_bRaf

reaction rate

J

(kcat * bRaf_act * Mek / (km + Mek)) [mmol.ml-1.min-1]

user defined

km

4768350.0 [mmol.ml-1]

user defined

kcat

185.759 [min-1]

Structures

Name
Type
Electrical
cell Compartment (+)   (-)

cell Universal ID's

cell Text Annotations

Species

Name
Structure
BioNetGen Definition
Depiction
Raf1_act cell Raf(Active~yes!-,).
Mek_act cell MEK(Active~yes!-,).
Mek cell MEK(Active~no!-,).
bRaf_act cell B_Raf(Active~yes!-,).
PP2A_act cell PP2A(Active~yes!-,).

Raf1_act Universal ID's

Raf1_act Text Annotations

Mek_act Universal ID's

Mek_act Text Annotations

Mek Universal ID's

Mek Text Annotations

bRaf_act Universal ID's

bRaf_act Text Annotations

PP2A_act Universal ID's

PP2A_act Text Annotations

Molecules

Name
BioNetGen Definition
DEPICTION
Raf Raf(Active~yes~no,)
MEK MEK(Active~yes~no,)
B_Raf B_Raf(Active~yes~no,)
PP2A PP2A(Active~yes~no,)

Raf Universal ID's

Raf Text Annotations

MEK Universal ID's

MEK Text Annotations

B_Raf Universal ID's

B_Raf Text Annotations

PP2A Universal ID's

PP2A Text Annotations

Observables

Name
Structure
Count
BNGL Definition
Sequence Type
DEPICTION

Applications

Name
Properties Math Type
Deterministic Specs - Species
Specs - Reaction
Simulations 		Deterministic (ODE) Compartmental

Deterministic Text Annotations

Deterministic Universal ID's

Annotations will come here

RFID | pubmed

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
Raf1_act (1800.0 * (t > 1.0) * (t < 3.0)) 0.0 [m2/min]
Mek_act 0.0 0.0 [m2/min]
Mek 600000.0 0.0 [m2/min]
bRaf_act (14000.0 * (t > 1.0) * (t < 7.0)) 0.0 [m2/min]
PP2A_act 120000.0 0.0 [m2/min]

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
Mek_Activation included
Mek_Deactivation included
Mek_Activation_bRaf included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options
Simulation0 10.0

KeepEvery 1

KeepAtMost 1000

Deterministic Universal ID's

Deterministic Text Annotations

Global Parameters

Name
Expression

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