org.simtk.moleculargraphics.cartoon
Class ProteinRibbonSegment

java.lang.Object
  org.simtk.moleculargraphics.cartoon.ActorCartoonClass
      org.simtk.moleculargraphics.cartoon.ProteinRibbonSegment

All Implemented Interfaces:

ActorCartoon, BaseCartoon, ResidueHighlightListener

Direct Known Subclasses:

BetaStrandRibbon, ProteinCoil, ProteinHelix

public class ProteinRibbonSegment
extends ActorCartoonClass

Author:

Christopher Bruns Base Class for protein Alpha Helix, Beta Strand, and Coil

Field Summary

protected double

lengthResolution

Fields inherited from class org.simtk.moleculargraphics.cartoon.ActorCartoonClass

actor, highlightActor, highlightMapper, highlightToonColors, invisibleColorScheme, isPopulated, mapper

Constructor Summary

ProteinRibbonSegment()

Method Summary

protected static Vector3D	chainDirection(Residue residue)
protected void	createExtrudedRibbon(vtk.vtkPolyData polyLine, double thickness, double ribbonFilterWidth, double ribbonFilterWidthFactor)
protected vtk.vtkPolyData	createPolyLine(java.util.List<Vector3D> positions, java.util.List<Vector3D> normals, java.util.List<Chemical> objects)
protected void	finishVtkPipeline(vtk.vtkPolyData polyData)
protected static Vector3D	hBondNormal(Residue residue, int endFlag)

Methods inherited from class org.simtk.moleculargraphics.cartoon.ActorCartoonClass

colorToon, colorToon, getActor, getChemicalFromScalar, getColorIndex, getHighlightActor, getMapper, highlightResidue, highlightResidueByAtomScalars, highlightResidueByResidueScalars, isPopulated, unhighlightResidue, unhighlightResidueByAtomScalars, unhighlightResidueByResidueScalars, unhighlightResidues

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

lengthResolution

protected double lengthResolution

Constructor Detail

ProteinRibbonSegment

public ProteinRibbonSegment()

Method Detail

hBondNormal

protected static Vector3D hBondNormal(Residue residue,
                                      int endFlag)

Parameters:

residue -

endFlag - -1 for first residue, +1 for final residue, zero for others

Returns:

a unit vector perpendicular to the chain direction and the direction of main-chain hydrogen bonding.

chainDirection

protected static Vector3D chainDirection(Residue residue)

createPolyLine

protected vtk.vtkPolyData createPolyLine(java.util.List<Vector3D> positions,
                                         java.util.List<Vector3D> normals,
                                         java.util.List<Chemical> objects)

createExtrudedRibbon

protected void createExtrudedRibbon(vtk.vtkPolyData polyLine,
                                    double thickness,
                                    double ribbonFilterWidth,
                                    double ribbonFilterWidthFactor)

finishVtkPipeline

protected void finishVtkPipeline(vtk.vtkPolyData polyData)