Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Depiction
P90RskP90Rsk_act P90Rsk_Activation cell GeneralKinetics
P90Rsk_actP90Rsk P90Rsk_Deactivation cell GeneralKinetics

P90Rsk_Activation Universal ID's

P90Rsk_Activation Text Annotations

P90Rsk_Deactivation Universal ID's

P90Rsk_Deactivation Text Annotations

Expressions for P90Rsk_Activation

reaction rate

J

(Kcat * Erk_act * P90Rsk / (km_act_P90Rsk + P90Rsk)) [mmol.ml-1.min-1]

global

km_act_P90Rsk

763523.0 [mmol.ml-1]

local

Kcat

0.0213697 [min-1]

Expressions for P90Rsk_Deactivation

reaction rate

J

(k1_dact_P90Rsk * P90Rsk_act) [mmol.ml-1.min-1]

global

k1_dact_P90Rsk

0.005 [min-1]

Structures

Name
Type
Electrical
cell Compartment (+)   (-)

cell Universal ID's

cell Text Annotations

Species

Name
Structure
BioNetGen Definition
Depiction
Erk_act cell ERK(Active~yes!-,). cell
P90Rsk_act cell P90Rsk(Active~yes!-,). cell
P90Rsk cell P90Rsk(Active~no!-,). cell

Erk_act Universal ID's

Erk_act Text Annotations

P90Rsk_act Universal ID's

P90Rsk_act Text Annotations

P90Rsk Universal ID's

P90Rsk Text Annotations

Molecules

Name
BioNetGen Definition
DEPICTION
ERK ERK(Active~yes~no,)
P90Rsk P90Rsk(Active~yes~no,)

ERK Universal ID's

ERK Text Annotations

P90Rsk Universal ID's

P90Rsk Text Annotations

Observables

Name
Structure
Count
BNGL Definition
Sequence Type
DEPICTION

Applications

Name
Properties Math Type
Annotation
Deterministic Specs - Species
Specs - Reaction
Simulations 		Deterministic (ODE) Compartmental cloned from 'Deterministic' owned by user PraneetDangol cloned from 'Deterministic' owned by user ModelBrick cloned from 'Deterministic' owned by user savi06 cloned from 'Deterministic' owned by user mblinov cloned from 'Deterministic' owned by user cab15130

Deterministic Universal ID's

Deterministic Text Annotations

Specifications (Species) - Deterministic go to Simulations

Species
Initial Condition
Diffusion Constant
Structure
Erk_act 0.0 [mmol] 0.0 [m2/min] cell
P90Rsk_act 0.0 [mmol] 0.0 [m2/min] cell
P90Rsk 120000.0 [mmol] 0.0 [m2/min] cell

Specifications (Reaction) - Deterministic go to Simulations

Name
Enabled?
P90Rsk_Activation included
P90Rsk_Deactivation included

Simulations - Deterministic go to Specifications

Name
End Time
Output Options

Assignments

Name Variable Assignment Function Expression

Events

Name Trigger Type Variable Assignment

Geometry Compartmental1272983677

(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 cell

Events

Name Variable Rate Expression

Global Parameters

Name
Expression
km_act_P90Rsk 763523.0[mmol.ml-1]
k1_dact_P90Rsk 0.005[min-1]

Universal ID's

Text Annotations

Universal ID's

Text Annotations

Downloads

Model Format
Model Downloads
Virtual Cell Markup Language VCML File
PDF Report Report
COMBINE Archive OMEX File
SEDML SEDML File
File Format
Application Downloads
BNGL Deterministic.bngl
SBML Deterministic.sbml
Matlab Deterministic.m
NFSim XML Deterministic.xml