org.simBio.bio.matsuoka_et_al_2004.molecule.buffer
Class HBuffering

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_2004.molecule.buffer.HBuffering

All Implemented Interfaces:

Node

public class HBuffering
extends Reactor

Buffering capacity coefficient for H⁺ (r_buffer).

  rbuffer = cbuffer / c0
 where;
  c0 = (10^(- pH) - 10^(- pH - dpH)) / dpH
  dpH = 0.001
 

Since:

rc20

Version:

$Id: HBuffering.java,v 1.5 2006/05/30 07:16:39 nsarai Exp $

Author:

SAITO Ryuta

See Also:

Korzeniewski B & Zoladz JA, Biophys. Chem., 92, 17-34, 2001
Korzeniewski B & Zoladz JA, Jpn. J. Physiol., 53, 271-280, 2003
XML example
explanation (Japanese, WORD doc)

Field Summary

double	cbuffer Buffering capacity for H+ (cbuffer).
Node	pH a measure of the activity of hydrogen ions (H+) in a solution

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

HBuffering()

Method Summary

protected void

calculate(double t) calculate and set the value of rbuffer.

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

pH

public Node pH

a measure of the activity of hydrogen ions (H⁺) in a solution

cbuffer

public double cbuffer

Buffering capacity for H⁺ (c_buffer). 22.0 (mM Proton / pH) in matrix, 25.0 (mM Proton / pH) in cytosol.

Constructor Detail

HBuffering

public HBuffering()

Method Detail

calculate

protected void calculate(double t)

calculate and set the value of r_buffer.

Specified by:

calculate in class Reactor

Parameters:

t -