Package org.biopax.paxtools.model.level3

Interface BindingFeature

All Superinterfaces:

BioPAXElement, Cloneable, EntityFeature, Level3Element, Observable, Serializable, UtilityClass

All Known Subinterfaces:

CovalentBindingFeature

All Known Implementing Classes:

BindingFeatureImpl, CovalentBindingFeatureImpl

public interface BindingFeature
extends EntityFeature

Field Summary

Fields inherited from interface org.biopax.paxtools.model.BioPAXElement

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Method Summary

Modifier and Type	Method	Description
BindingFeature	getBindsTo()	A binding feature represents a "half" of the bond between two entities.
Boolean	getIntraMolecular()	IntraMolecular flag is true iff this binding feature represents a bond within the same molecule, for example a disulfide bond within the same molecule.
void	setBindsTo(BindingFeature bindsTo)	A binding feature represents a "half" of the bond between two entities.
void	setIntraMolecular(Boolean intramolecular)	IntraMolecular flag is true iff this binding feature represents a bond within the same molecule, for example a disulfide bond within the same molecule.

Methods inherited from interface org.biopax.paxtools.model.BioPAXElement

equivalenceCode, getAnnotations, getModelInterface, getUri, isEquivalent

Methods inherited from interface org.biopax.paxtools.model.level3.EntityFeature

addMemberFeature, atEquivalentLocation, getEntityFeatureOf, getFeatureLocation, getFeatureLocationType, getFeatureOf, getMemberFeature, getMemberFeatureOf, getNotFeatureOf, removeMemberFeature, setFeatureLocation, setFeatureLocationType

Methods inherited from interface org.biopax.paxtools.model.level3.Level3Element

addComment, getComment, removeComment

Methods inherited from interface org.biopax.paxtools.model.level3.Observable

addEvidence, getEvidence, removeEvidence

Method Details

getBindsTo

BindingFeature getBindsTo()

A binding feature represents a "half" of the bond between two entities. This property points to another binding feature which represents the other half. The bond can be covalent or non-covalent.

Returns:

paired binding feature.

setBindsTo

void setBindsTo(BindingFeature bindsTo)

A binding feature represents a "half" of the bond between two entities. This property points to another binding feature which represents the other half. The bond can be covalent or non-covalent.

Parameters:

bindsTo - paired binding feature.

getIntraMolecular

Boolean getIntraMolecular()

IntraMolecular flag is true iff this binding feature represents a bond within the same molecule, for example a disulfide bond within the same molecule. A true value true implies that this.isEntityFeatureOf() == this.getBindsTo.isEntityFeatureOf() although the inverse is not true e.g a chain of actin proteins.

Returns:

true iff this binding feature represents a bond within the same molecule.

setIntraMolecular

void setIntraMolecular(Boolean intramolecular)

IntraMolecular flag is true iff this binding feature represents a bond within the same molecule, for example a disulfide bond within the same molecule. A true value implies that this.isEntityFeatureOf() == this.getBindsTo.isEntityFeatureOf() although the inverse is not true e.g a chain of actin proteins.

Parameters:

intramolecular - whether if this binding feature represents a bond within the same molecule.