com.hfg.bio

Class NTerminalGroup

java.lang.Object

com.hfg.chem.Molecule

com.hfg.bio.NTerminalGroup

All Implemented Interfaces:

Matter, HfgXMLSerializable, Cloneable, Comparable

public class NTerminalGroup
extends Molecule

N-terminal protein group.

Field Summary

Fields

Modifier and Type	Field and Description
static NTerminalGroup	BOC_T_BUTYLOXYCARBONYL
static NTerminalGroup	CBZ_BENZYLOXYCARBONLYL
static NTerminalGroup	N_ACETYL
static NTerminalGroup	N_CARBAMYL
static NTerminalGroup	N_FORMYL
static NTerminalGroup	N_METHYL
static NTerminalGroup	N_MYRISTOYL
static NTerminalGroup	PYRO_GLU_N_TERM_GLN
static NTerminalGroup	PYRO_GLU_N_TERM_GLU
static NTerminalGroup	UNMODIFIED_N_TERMINUS

Fields inherited from class com.hfg.chem.Molecule

H2O, mLocked, mName, NaCl, NH3

Constructor Summary

Constructors

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

Method Summary

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

public static final NTerminalGroup UNMODIFIED_N_TERMINUS

BOC_T_BUTYLOXYCARBONYL

public static final NTerminalGroup BOC_T_BUTYLOXYCARBONYL

CBZ_BENZYLOXYCARBONLYL

public static final NTerminalGroup CBZ_BENZYLOXYCARBONLYL

N_ACETYL

public static final NTerminalGroup N_ACETYL

N_CARBAMYL

public static final NTerminalGroup N_CARBAMYL

N_FORMYL

public static final NTerminalGroup N_FORMYL

N_METHYL

public static final NTerminalGroup N_METHYL

N_MYRISTOYL

public static final NTerminalGroup N_MYRISTOYL

PYRO_GLU_N_TERM_GLU

public static final NTerminalGroup PYRO_GLU_N_TERM_GLU

PYRO_GLU_N_TERM_GLN

public static final NTerminalGroup PYRO_GLU_N_TERM_GLN

Constructor Detail

NTerminalGroup

public NTerminalGroup(String inName)

NTerminalGroup

public NTerminalGroup(String inName,
                      Map inElementalComposition)

NTerminalGroup

public NTerminalGroup(XMLNode inXML)

Method Detail

values

public static NTerminalGroup[] values()

valueOf

public static NTerminalGroup valueOf(String inString)

Returns the NTerminalGroup whose name matches the specified String.

Parameters:

inString - the name for the NTerminalGroup to retrieve

Returns:

the NTerminalGroup whose name matches the specified String

register

public void register()

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

addAtoms

public NTerminalGroup addAtoms(Element inElement,
                               int inNum)

Overrides:

addAtoms in class Molecule

lock

public NTerminalGroup lock()

Overrides:

lock in class Molecule

addKa

public NTerminalGroup 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