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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.RespiratoryChain.ComplexIV
public class ComplexIV
Cytochrome c Oxidase (complex IV).
vC4 = kC4 * [a2+] * [c2+] * 1/(1 + KmO/[Oxygen])
Field Summary | |
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Node |
a2
cytochrome a2+ (reduced) concentration |
double |
Amp
amplifying factor described in Kuzumoto et al, 2007. |
Node |
c2
cytochrome c2+ (reduced) concentration |
Node |
kC4
rate constant of complex IV |
double |
KmO
oxygen affinity of complex IV |
Node |
O2
oxygen concentration |
Fields inherited from class org.simBio.core.Parameter |
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value |
Constructor Summary | |
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ComplexIV()
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Method Summary | |
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protected void |
calculate(double t)
write equations here, and calculate dy over dt. |
Methods inherited from class org.simBio.core.Composite |
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accept, getLink, getNode, getNodesIterator, getNodesSize |
Methods inherited from class org.simBio.core.Parameter |
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addValue, getValue, getValueString, prepare, setInitializer, setValue, setValueString, setValueToField |
Methods inherited from class org.simBio.core.Component |
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addDydt, end, getIndent, getIndentedShortName, getName, getName, getParent, getRoot, getShortName, getUnits, isNamed, isPrefixed, logIndented, quit, setLinks |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Methods inherited from interface org.simBio.core.Node |
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addDydt, addValue, getValue, setValue |
Field Detail |
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public Node a2
public Node c2
public Node O2
public double KmO
public Node kC4
public double Amp
Constructor Detail |
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public ComplexIV()
Method Detail |
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protected void calculate(double t)
Reactor
calculate
in class Reactor
t
- elapsed time (ms)
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