/* $RCSfile$
* $Author$
* $Date$
* $Revision$
*
* Copyright (C) 2006-2007 Miguel Rojas <miguel.rojas@uni-koeln.de>
*
* Contact: cdk-devel@lists.sourceforge.net
*
* This program is free software; you can redistribute it and/or
* modify it under the terms of the GNU Lesser General Public License
* as published by the Free Software Foundation; either version 2.1
* of the License, or (at your option) any later version.
* All we ask is that proper credit is given for our work, which includes
* - but is not limited to - adding the above copyright notice to the beginning
* of your source code files, and to any copyright notice that you may distribute
* with programs based on this work.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with this program; if not, write to the Free Software
* Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA.
* */
package org.openscience.cdk.interfaces;
import java.util.Collection;
/**
* A PDBPolymer is a subclass of a BioPolymer which is supposed to store
* additional informations about the BioPolymer which are connected to BioPolymers.
*
* @cdk.module interfaces
* @cdk.githash
*
* @author Miguel Rojas <miguel.rojas@uni-koeln.de>
* @cdk.created 2006-11-20
*
* @cdk.keyword polymer
* @cdk.keyword biopolymer
* @cdk.keyword pdbpolymer
*/
public interface IPDBPolymer extends IBioPolymer {
/**
* Adds the atom oAtom without specifying a Monomer or a Strand. Therefore the
* atom to this AtomContainer, but not to a certain Strand or Monomer (intended
* e.g. for HETATMs).
*
* @param oAtom The atom to add
*/
public void addAtom(IPDBAtom oAtom);
/**
* Adds the atom to a specified Strand and a specified Monomer.
*
* @param oAtom The atom to add
* @param oMonomer The monomer the atom belongs to
* @param oStrand The strand the atom belongs to
*/
public void addAtom(IPDBAtom oAtom, IMonomer oMonomer, IStrand oStrand);
/**
* Adds the PDBStructure structure a this PDBPolymer.
*
* @param structure The PDBStructure to add
*/
public void addStructure(IPDBStructure structure);
/**
* Returns a Collection containing the PDBStructure in the PDBPolymer.
*
* @return Collection containing the PDBStructure in the PDBPolymer
*/
public Collection<IPDBStructure> getStructures();
}