org.simBio.bio.kuzumoto_et_al_2007.molecule
Class CAMP

java.lang.Object
  org.simBio.core.Component
      org.simBio.core.Parameter
          org.simBio.core.Composite
              org.simBio.core.Reactor
                  org.simBio.bio.kuzumoto_et_al_2007.molecule.CAMP

All Implemented Interfaces:

Node

public class CAMP
extends Reactor

cAMP module.

  F7: AC=ACtot-Gs_alpha_GTP_AC
  F8: Gs_alpha_GTP_AC=Gs_alpha_GTP*AC/K_Gs_alpha
  F9: Gs_alpha_GTP=Gs_alpha_GTPtot-Gs_alpha_GTP_AC
 

Version:

$Id: CAMP.java,v 1.1 2007/12/15 07:21:54 nsarai Exp $

Author:

M. Kuzumoto, Hiroyuki Nakai

See Also:

Kuzumoto et al, 2007.

Field Summary

Node	AC Adenylate cyclase concentration (mM)
double	ACtot total adenylate cyclase concentration (mM)
Node	ATP ATP concentration (mM)
Node	cAMP Phosphodiesterase concentration (mM)
Node	cAMPtot total cAMP concentration (mM)
Node	Gs_alpha_GTP Gs_alpha GTP-form concentration (mM)
Node	Gs_alpha_GTP_AC Gs_alpha_GTP and AC complex concentration (mM)
Node	Gs_alpha_GTPtot Gs_alpha_GTP total concentration (mM)
double	k_AC_basal rate constant
double	k_AC_Gs_alpha rate constant
double	K_Gs_alpha rate constant
double	k_PDE rate constant
double	Km_basal Km value
double	Km_Gs_alpha_GTP Km value
double	Km_PDE Km value
Node	PDE Phosphodiesterase concentration (mM)

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

CAMP()

Method Summary

protected void

calculate(double t) write equations here, and calculate dy over dt.

Methods inherited from class org.simBio.core.Composite

accept, getLink, getNode, getNodesIterator, getNodesSize

Methods inherited from class org.simBio.core.Parameter

addValue, getValue, getValueString, prepare, setInitializer, setValue, setValueString, setValueToField

Methods inherited from class org.simBio.core.Component

addDydt, end, getIndent, getIndentedShortName, getName, getName, getParent, getRoot, getShortName, getUnits, isNamed, isPrefixed, logIndented, quit, setLinks

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.simBio.core.Node

addDydt, addValue, getValue, setValue

Field Detail

AC

public Node AC

Adenylate cyclase concentration (mM)

Gs_alpha_GTP

public Node Gs_alpha_GTP

Gs_alpha GTP-form concentration (mM)

Gs_alpha_GTP_AC

public Node Gs_alpha_GTP_AC

Gs_alpha_GTP and AC complex concentration (mM)

Gs_alpha_GTPtot

public Node Gs_alpha_GTPtot

Gs_alpha_GTP total concentration (mM)

K_Gs_alpha

public double K_Gs_alpha

rate constant

ACtot

public double ACtot

total adenylate cyclase concentration (mM)

cAMP

public Node cAMP

Phosphodiesterase concentration (mM)

cAMPtot

public Node cAMPtot

total cAMP concentration (mM)

ATP

public Node ATP

ATP concentration (mM)

PDE

public Node PDE

Phosphodiesterase concentration (mM)

k_AC_basal

public double k_AC_basal

rate constant

k_PDE

public double k_PDE

rate constant

k_AC_Gs_alpha

public double k_AC_Gs_alpha

rate constant

Km_basal

public double Km_basal

Km value

Km_PDE

public double Km_PDE

Km value

Km_Gs_alpha_GTP

public double Km_Gs_alpha_GTP

Km value

Constructor Detail

CAMP

public CAMP()

Method Detail

calculate

protected void calculate(double t)

Description copied from class: Reactor

write equations here, and calculate dy over dt.
計算中に呼び出される。 計算式を記載する。dy/dtをここで計算する。

Specified by:

calculate in class Reactor

Parameters:

t - elapsed time (ms)