org.simBio.bio.kuzumoto_et_al_2007.current.carrier
Class IPMCA

java.lang.Object
  org.simBio.core.Component
      org.simBio.core.Parameter
          org.simBio.core.Composite
              org.simBio.core.Reactor
                  org.simBio.bio.matsuoka_et_al_2003.current.MembraneTransporter
                      org.simBio.bio.matsuoka_et_al_2003.current.carrier.Carrier
                          org.simBio.bio.kuzumoto_et_al_2007.current.carrier.IPMCA

All Implemented Interfaces:

Node

public class IPMCA
extends Carrier

Ca pump on cell membrane. 1 ATP extrudes 1 Ca²⁺ and imports 1 H⁺ The H⁺ movement is not included in calculation. ADP production is incorporated.

Version:

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

Author:

SAITO Ryuta

See Also:

Kuzumoto et al, 2007., IPMCA

Field Summary

Node	ADP
double	amplitude0
double	amplitudePKAf to modulate PKA effect
Node	ATP intracellular ATP concentration (mM)
Node	CaCaM
Node	Cai Ca2+ concentration in cytoplasm (mM)
Node	Cao Ca2+ concentration in external solution (mM)
Node	dATP instantaneous rate of the ATP consumption (M/s)
double	F Faradey constant
double	KmCaCp0 Dissociation constant for Ca binding within cytoplasm (mM)
Component	Phosphorylation
Node	Pi
Node	PKA PKA type I concentration (mM)
Node	Vi cell volume accessible for ion diffusion

Fields inherited from class org.simBio.bio.matsuoka_et_al_2003.current.carrier.Carrier

amplitude, Cm, E1A, E1B, E2A, E2B, gate, k1, k2, k3, k4, stoichiometryCa, stoichiometryK, stoichiometryNa

Fields inherited from class org.simBio.bio.matsuoka_et_al_2003.current.MembraneTransporter

cCa, CCa, cK, CK, cNa, CNa, current, currentCa, currentK, currentNa, total

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

IPMCA()

Method Summary

protected void	calculate(double t) calculate total charge movement using reduced 2 state model 2 state gateを用いて電流を計算する
void	prepare() construct null current

Methods inherited from class org.simBio.core.Composite

accept, getLink, getNode, getNodesIterator, getNodesSize

Methods inherited from class org.simBio.core.Parameter

addValue, getValue, getValueString, 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

Cai

public Node Cai

Ca²⁺ concentration in cytoplasm (mM)

Cao

public Node Cao

Ca²⁺ concentration in external solution (mM)

KmCaCp0

public double KmCaCp0

Dissociation constant for Ca binding within cytoplasm (mM)

ATP

public Node ATP

intracellular ATP concentration (mM)

ADP

public Node ADP

Pi

public Node Pi

dATP

public Node dATP

instantaneous rate of the ATP consumption (M/s)

Vi

public Node Vi

cell volume accessible for ion diffusion

F

public double F

Faradey constant

Phosphorylation

public Component Phosphorylation

PKA

public Node PKA

PKA type I concentration (mM)

CaCaM

public Node CaCaM

amplitude0

public double amplitude0

amplitudePKAf

public double amplitudePKAf

to modulate PKA effect

Constructor Detail

IPMCA

public IPMCA()

Method Detail

prepare

public void prepare()

Description copied from class: MembraneTransporter

construct null current

Overrides:

prepare in class MembraneTransporter

See Also:

Component.prepare()

calculate

protected void calculate(double t)

Description copied from class: Carrier

calculate total charge movement using reduced 2 state model
2 state gateを用いて電流を計算する

Overrides:

calculate in class Carrier

Parameters:

t - time