org.simtk.molecularstructure.atom
Interface Atom

All Superinterfaces:

Chemical, ChemicalElement, MassBody

All Known Implementing Classes:

AtomClass

public interface Atom
extends ChemicalElement, MassBody

Method Summary

void	addPosition(AtomPosition position)
java.util.Collection<Atom>	bonds()
double	distance(Atom atom2)
java.lang.String	getAtomName()
Vector3D	getCoordinates()
double	getOccupancy()
Residue	getResidue()
double	getTemperatureFactor()
void	setAtomName(java.lang.String name)
void	setCoordinates(Vector3D coordinates)

Methods inherited from interface org.simtk.molecularstructure.atom.ChemicalElement

getCovalentRadius, getElementName, getElementSymbol, getMass, getVanDerWaalsRadius

Methods inherited from interface org.simtk.geometry3d.MassBody

getCenterOfMass, getMass

Method Detail

getAtomName

java.lang.String getAtomName()

getCoordinates

Vector3D getCoordinates()

getTemperatureFactor

double getTemperatureFactor()

getOccupancy

double getOccupancy()

bonds

java.util.Collection<Atom> bonds()

distance

double distance(Atom atom2)

setAtomName

void setAtomName(java.lang.String name)

addPosition

void addPosition(AtomPosition position)

setCoordinates

void setCoordinates(Vector3D coordinates)

getResidue

Residue getResidue()