CplxEnzBase Class Reference

#include <CplxEnzBase.h>

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List of all members.

Public Member Functions
	CplxEnzBase ()
virtual	~CplxEnzBase ()
void	setK1 (const Eref &e, double v)
double	getK1 (const Eref &e) const
void	setK2 (const Eref &e, double v)
double	getK2 (const Eref &e) const
void	setRatio (const Eref &e, double v)
double	getRatio (const Eref &e) const
void	setConcK1 (const Eref &e, double v)
double	getConcK1 (const Eref &e) const
virtual void	vSetK1 (const Eref &e, double v)=0
virtual double	vGetK1 (const Eref &e) const =0
virtual void	vSetK2 (const Eref &e, double v)=0
virtual double	vGetK2 (const Eref &e) const =0
virtual void	vSetRatio (const Eref &e, double v)=0
virtual double	vGetRatio (const Eref &e) const =0
virtual void	vSetConcK1 (const Eref &e, double v)=0
virtual double	vGetConcK1 (const Eref &e) const =0
void	cplx (double n)
virtual void	vCplx (double n)
Static Public Member Functions
static void	zombify (Element *original, const Cinfo *zClass, Id solver)
static const Cinfo *	initCinfo ()

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Detailed Description

This class is for mass-action enzymes, in which there is an explict pool for the enzyme-substrate complex. It models the reaction E + S <===> E.S ----> E + P

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Constructor & Destructor Documentation

CplxEnzBase::CplxEnzBase

(

)

CplxEnzBase::~CplxEnzBase

(

)

[virtual]

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Member Function Documentation

void CplxEnzBase::cplx

(

double

n

)

References vCplx().

Referenced by initCinfo().

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double CplxEnzBase::getConcK1

(

const Eref &

e

)

const

References vGetConcK1().

Referenced by initCinfo(), and zombify().

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double CplxEnzBase::getK1

(

const Eref &

e

)

const

References vGetK1().

Referenced by initCinfo().

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double CplxEnzBase::getK2

(

const Eref &

e

)

const

References vGetK2().

Referenced by initCinfo(), ZombieEnz::vGetKm(), ZombieEnz::vGetRatio(), ZombieEnz::vSetKm(), ZombieEnz::vSetNumKm(), ZombieEnz::vSetRatio(), and zombify().

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double CplxEnzBase::getRatio

(

const Eref &

e

)

const

References vGetRatio().

Referenced by initCinfo().

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const Cinfo * CplxEnzBase::initCinfo

(

)

[static]

Reimplemented from EnzBase.

Reimplemented in Enz, and ZombieEnz.

References cplx(), EnzBase::enz(), enzDest(), getConcK1(), getK1(), getK2(), EnzBase::getKcat(), getRatio(), EnzBase::initCinfo(), setConcK1(), setK1(), setK2(), EnzBase::setKcat(), and setRatio().

Referenced by ZombieEnz::initCinfo(), and Enz::initCinfo().

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void CplxEnzBase::setConcK1	(	const Eref &	e,
		double	v
	)

References vSetConcK1().

Referenced by initCinfo(), ZombieEnz::vSetRatio(), and zombify().

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void CplxEnzBase::setK1	(	const Eref &	e,
		double	v
	)

References vSetK1().

Referenced by initCinfo().

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void CplxEnzBase::setK2	(	const Eref &	e,
		double	v
	)

References vSetK2().

Referenced by initCinfo(), and zombify().

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void CplxEnzBase::setRatio	(	const Eref &	e,
		double	v
	)

References vSetRatio().

Referenced by initCinfo().

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void CplxEnzBase::vCplx

(

double

n

)

[virtual]

Reimplemented in Enz.

Referenced by cplx().

virtual double CplxEnzBase::vGetConcK1

(

const Eref &

e

)

const [pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by getConcK1().

virtual double CplxEnzBase::vGetK1

(

const Eref &

e

)

const [pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by getK1().

virtual double CplxEnzBase::vGetK2

(

const Eref &

e

)

const [pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by getK2().

virtual double CplxEnzBase::vGetRatio

(

const Eref &

e

)

const [pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by getRatio().

virtual void CplxEnzBase::vSetConcK1	(	const Eref &	e,
		double	v
	)			[pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by setConcK1().

virtual void CplxEnzBase::vSetK1	(	const Eref &	e,
		double	v
	)			[pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by setK1().

virtual void CplxEnzBase::vSetK2	(	const Eref &	e,
		double	v
	)			[pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by setK2().

virtual void CplxEnzBase::vSetRatio	(	const Eref &	e,
		double	v
	)			[pure virtual]

Implemented in Enz, and ZombieEnz.

Referenced by setRatio().

void CplxEnzBase::zombify	(	Element *	orig,
		const Cinfo *	zClass,
		Id	solver
	)			[static]

This function helps the conversion between CplxEnz subclasses, these are the ones that have an explicit enzyme-substrate complex molecule. Note that I use the ConcK1 terms because those are independent of the volume decomposition. K2 and kcat (ie., k3) only have time units.

Reimplemented from EnzBase.

References Element::cinfo(), Eref::data(), getConcK1(), getK2(), EnzBase::getKcat(), Element::id(), Element::localDataStart(), Element::numLocalData(), setConcK1(), setK2(), EnzBase::setKcat(), EnzBase::setSolver(), and Element::zombieSwap().

Referenced by Stoich::unZombifyModel().

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The documentation for this class was generated from the following files:

• kinetics/CplxEnzBase.h
• kinetics/CplxEnzBase.cpp