org.jmol.modelsetbio
Class PhosphorusPolymer

java.lang.Object
  extended by org.jmol.modelset.Polymer
      extended by org.jmol.modelsetbio.BioPolymer
          extended by org.jmol.modelsetbio.PhosphorusPolymer

 class PhosphorusPolymer
extends BioPolymer


Field Summary
 
Fields inherited from class org.jmol.modelsetbio.BioPolymer
bsSelectedMonomers, hasWingPoints, haveParameters, invalidControl, monomers, sheetSmoothing
 
Fields inherited from class org.jmol.modelset.Polymer
bioPolymerIndexInModel, controlPoints, leadAtomIndices, leadMidpoints, leadPoints, model, monomerCount, type, TYPE_AMINO, TYPE_CARBOHYDRATE, TYPE_NOBONDING, TYPE_NUCLEIC, wingVectors
 
Constructor Summary
PhosphorusPolymer(Monomer[] monomers)
           
 
Method Summary
 void getPdbData(Viewer viewer, char ctype, char qtype, int mStep, int derivType, java.util.BitSet bsAtoms, java.util.BitSet bsSelected, boolean bothEnds, boolean isDraw, boolean addHeader, LabelToken[] tokens, OutputStringBuffer pdbATOM, java.lang.StringBuffer pdbCONECT, java.util.BitSet bsWritten)
           
 
Methods inherited from class org.jmol.modelsetbio.BioPolymer
allocateBioPolymer, calcEtaThetaAngles, calcParameters, calcPhiPsiAngles, calcSelectedMonomersCount, calculateRamachandranHelixAngle, calculateStructures, clearStructures, findNearestAtomIndex, getConformation, getControlPoint, getControlPoints, getControlPoints, getGroups, getIndex, getInitiatorPoint, getLeadAtomIndices, getLeadMidPoint, getLeadMidpoints, getLeadPoint, getLeadPoint, getLeadPoints, getPdbData, getPolymerInfo, getPolymerPointsAndVectors, getPolymerSequenceAtoms, getProteinStructure, getRange, getRangeGroups, getSelectedMonomerCount, getSequence, getTerminatorPoint, getWingPoint, getWingVectors, isDna, isMonomerSelected, isRna, recalculateLeadMidpointsAndWingVectors, removeProteinStructure, resetHydrogenPoints, setConformation
 
Methods inherited from class org.jmol.modelset.Polymer
addSecondaryStructure, calcRasmolHydrogenBonds, calculateStructures, calculateStruts, getType, setStructureList
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

PhosphorusPolymer

PhosphorusPolymer(Monomer[] monomers)
Method Detail

getPdbData

public void getPdbData(Viewer viewer,
                       char ctype,
                       char qtype,
                       int mStep,
                       int derivType,
                       java.util.BitSet bsAtoms,
                       java.util.BitSet bsSelected,
                       boolean bothEnds,
                       boolean isDraw,
                       boolean addHeader,
                       LabelToken[] tokens,
                       OutputStringBuffer pdbATOM,
                       java.lang.StringBuffer pdbCONECT,
                       java.util.BitSet bsWritten)
Overrides:
getPdbData in class Polymer