com.hfg.bio

Class CTerminalGroup

java.lang.Object

com.hfg.chem.Molecule

com.hfg.bio.CTerminalGroup

All Implemented Interfaces:

Matter, HfgXMLSerializable, Cloneable, Comparable

public class CTerminalGroup
extends Molecule

C-terminal protein group.

Field Summary

Fields

Modifier and Type	Field and Description
static CTerminalGroup	AMIDE
static CTerminalGroup	O_METHYL
static CTerminalGroup	UNMODIFIED_C_TERMINUS

Fields inherited from class com.hfg.chem.Molecule

H2O, mLocked, mName, NaCl, NH3

Constructor Summary

Constructors

Constructor and Description
CTerminalGroup(String inName)
CTerminalGroup(String inName, Map inElementalComposition)
CTerminalGroup(XMLNode inXML)

Method Summary

Modifier and Type	Method and Description
CTerminalGroup	addAtoms(Element inElement, int inNum)
CTerminalGroup	addKa(IonizableGroup inValue)
String	getShortName()
CTerminalGroup	lock()
void	register() Puts the CTerminalGroup into the Set of unique CTerminalGroup returned by CTerminalGroup.values().
XMLNode	toXMLNode()
static CTerminalGroup	valueOf(String inString) Returns the CTerminalGroup whose name matches the specified String.
static CTerminalGroup[]	values()

Methods inherited from class com.hfg.chem.Molecule

add, add, addAtom, addAtoms, addAtoms, addElementalComposition, addElementalComposition, addElementalComposition, addKa, calculateMassFromElementalComposition, clearAttributes, clearCalculatedProperties, clearElementalComposition, clone, compareTo, equals, formatMassString, getAtoms, getAttribute, getAttributeNames, getAverageMass, getChemicalFormula, getChemicalFormulaWithSubscripts, getElementalComposition, getKas, getLastAtom, getMonoisotopicMass, getOrganicAverageMass, getPhysicalProperty, hasAttribute, hasAttributes, hashCode, isLocked, massesAreUserSet, name, remove, remove, removeAttribute, setAttribute, setAverageMass, setChemicalFormula, setElementalComposition, setMonoisotopicMass, setName, setOrganicAverageMass, setPhysicalProperty, toString

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

UNMODIFIED_C_TERMINUS

public static final CTerminalGroup UNMODIFIED_C_TERMINUS

AMIDE

public static final CTerminalGroup AMIDE

O_METHYL

public static final CTerminalGroup O_METHYL

Constructor Detail

CTerminalGroup

public CTerminalGroup(String inName)

CTerminalGroup

public CTerminalGroup(String inName,
                      Map inElementalComposition)

CTerminalGroup

public CTerminalGroup(XMLNode inXML)

Method Detail

values

public static CTerminalGroup[] values()

valueOf

public static CTerminalGroup valueOf(String inString)

Returns the CTerminalGroup whose name matches the specified String.

Parameters:

inString - the name for the CTerminalGroup to retrieve

Returns:

the CTerminalGroup whose name matches the specified String

register

public void register()

Puts the CTerminalGroup into the Set of unique CTerminalGroup returned by CTerminalGroup.values().

addAtoms

public CTerminalGroup addAtoms(Element inElement,
                               int inNum)

Overrides:

addAtoms in class Molecule

lock

public CTerminalGroup lock()

Overrides:

lock in class Molecule

addKa

public CTerminalGroup addKa(IonizableGroup inValue)

Overrides:

addKa in class Molecule

getShortName

public String getShortName()

toXMLNode

public XMLNode toXMLNode()

Specified by:

toXMLNode in interface HfgXMLSerializable

Overrides:

toXMLNode in class Molecule