Package org.biojava.nbio.protmod

Class ProteinModificationImpl

java.lang.Object

org.biojava.nbio.protmod.ProteinModificationImpl

All Implemented Interfaces:

Comparable<ProteinModification>, ProteinModification

public class ProteinModificationImpl
extends Object
implements ProteinModification, Comparable<ProteinModification>

This class contains information about a specific protein modification.

Since:

3.0

Author:

Jianjiong Gao

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	ProteinModificationImpl.Builder	Uses Builder pattern to build a ProteinModification.

Method Summary

Modifier and Type	Method	Description
int	compareTo(ProteinModification arg0)
boolean	equals(Object obj)
ModificationCategory	getCategory()
ModificationCondition	getCondition()
String	getDescription()
String	getFormula()
String	getId()
Set<String>	getKeywords()
ModificationOccurrenceType	getOccurrenceType()
String	getPdbccId()
String	getPdbccName()
String	getPsimodId()
String	getPsimodName()
String	getResidId()
String	getResidName()
String	getSystematicName()
int	hashCode()
String	toString()

Methods inherited from class java.lang.Object

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

Method Details

getId

public String getId()

Specified by:

getId in interface ProteinModification

Returns:

modification id.

getPdbccId

public String getPdbccId()

Specified by:

getPdbccId in interface ProteinModification

Returns:

Protein Data Bank Chemical Component ID.

getPdbccName

public String getPdbccName()

Specified by:

getPdbccName in interface ProteinModification

Returns:

Protein Data Bank Chemical Component name.

getResidId

public String getResidId()

Specified by:

getResidId in interface ProteinModification

Returns:

RESID ID.

getResidName

public String getResidName()

Specified by:

getResidName in interface ProteinModification

Returns:

RESID name.

getPsimodId

public String getPsimodId()

Specified by:

getPsimodId in interface ProteinModification

Returns:

PSI-MOD ID.

getPsimodName

public String getPsimodName()

Specified by:

getPsimodName in interface ProteinModification

Returns:

PSI-MOD name.

getSystematicName

public String getSystematicName()

Specified by:

getSystematicName in interface ProteinModification

Returns:

Systematic name.

getDescription

public String getDescription()

Specified by:

getDescription in interface ProteinModification

Returns:

Description.

getKeywords

public Set<String> getKeywords()

Specified by:

getKeywords in interface ProteinModification

Returns:

a set of keywords.

getCondition

public ModificationCondition getCondition()

Specified by:

getCondition in interface ProteinModification

Returns:

ModificationCondition

getFormula

public String getFormula()

Specified by:

getFormula in interface ProteinModification

Returns:

formula of the modified residue.

getCategory

public ModificationCategory getCategory()

Specified by:

getCategory in interface ProteinModification

Returns:

the modification category.

getOccurrenceType

public ModificationOccurrenceType getOccurrenceType()

Specified by:

getOccurrenceType in interface ProteinModification

Returns:

the modification occurrence type.

toString

public String toString()

Overrides:

toString in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

compareTo

public int compareTo(ProteinModification arg0)

Specified by:

compareTo in interface Comparable<ProteinModification>