com.hfg.bio.glyco

Class Monosaccharide

java.lang.Object

com.hfg.chem.Molecule

com.hfg.bio.glyco.Monosaccharide

All Implemented Interfaces:

Matter, HfgXMLSerializable, Cloneable, Comparable

public class Monosaccharide
extends Molecule

Monosaccharide values.

See https://en.wikipedia.org/wiki/Monosaccharide

See http://www.genome.jp/kegg/catalog/codes2.html

Field Summary

Fields

Modifier and Type	Field and Description
static Monosaccharide	Fucose
static Monosaccharide	Galactose
static Monosaccharide	GalNAc
static Monosaccharide	GlcA
static Monosaccharide	GlcNAc
static Monosaccharide	Glucose
static Monosaccharide	HexNAc
static Monosaccharide	Hexose Generic hexose.
static Monosaccharide	KDN
static Monosaccharide	ManNAc
static Monosaccharide	Mannose
static Monosaccharide	NeuAc
static Monosaccharide	NeuGc
static Monosaccharide	Xylose

Fields inherited from class com.hfg.chem.Molecule

H2O, mLocked, NaCl, NH3

Method Summary

Modifier and Type	Method and Description
Monosaccharide	addAtoms(Element inElement, float inCount)
Monosaccharide	addAtoms(Element inElement, int inCount)
Monosaccharide	addKa(IonizableGroup inValue)
int	compareTo(Object inObj2)
String	getAbbrev()
Color	getColor()
Shape	getShape()
Monosaccharide	lock()
String	name()
void	register() Puts the Monosaccharide into the Set of unique Monosaccharide returned by Monosaccharide.values().
String	toString()
SvgNode	toSVGNode()
static Monosaccharide	valueOf(String inString)
static Monosaccharide[]	values()

Methods inherited from class com.hfg.chem.Molecule

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

Methods inherited from class java.lang.Object

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

Field Detail

Hexose

public static final Monosaccharide Hexose

Generic hexose.

Galactose

public static final Monosaccharide Galactose

Glucose

public static final Monosaccharide Glucose

Mannose

public static final Monosaccharide Mannose

Fucose

public static final Monosaccharide Fucose

Xylose

public static final Monosaccharide Xylose

HexNAc

public static final Monosaccharide HexNAc

GalNAc

public static final Monosaccharide GalNAc

GlcNAc

public static final Monosaccharide GlcNAc

ManNAc

public static final Monosaccharide ManNAc

NeuAc

public static final Monosaccharide NeuAc

NeuGc

public static final Monosaccharide NeuGc

KDN

public static final Monosaccharide KDN

GlcA

public static final Monosaccharide GlcA

Method Detail

valueOf

public static Monosaccharide valueOf(String inString)

values

public static Monosaccharide[] values()

register

public void register()

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

addAtoms

public Monosaccharide addAtoms(Element inElement,
                               int inCount)

Overrides:

addAtoms in class Molecule

addAtoms

public Monosaccharide addAtoms(Element inElement,
                               float inCount)

Overrides:

addAtoms in class Molecule

lock

public Monosaccharide lock()

Overrides:

lock in class Molecule

name

public String name()

Overrides:

name in class Molecule

getAbbrev

public String getAbbrev()

getShape

public Shape getShape()

getColor

public Color getColor()

addKa

public Monosaccharide addKa(IonizableGroup inValue)

Overrides:

addKa in class Molecule

toString

public String toString()

Overrides:

toString in class Molecule

toSVGNode

public SvgNode toSVGNode()

compareTo

public int compareTo(Object inObj2)

Specified by:

compareTo in interface Comparable

Overrides:

compareTo in class Molecule