Package edu.mssm.crover.domain2d.rbdg.xml

Class Summary

Colors	Groups color-related options
ColorScheme	Selects the color-scheme.
ColorSchemeDescriptor
ColorsDescriptor
ControlPoints	Use only when subunit type is FreeLoop, Nterm or Cterm.
ControlPointsDescriptor
Cpoint	A control point.
CpointDescriptor
Define	Define a new color.
DefineDescriptor
Diagram	Groups the main sections that determine how the diagram will appear.
DiagramDescriptor
DiagramLayout	Describes the graphical arrangement of secondary structure units on the 2D page.
DiagramLayoutDescriptor
Direction	Direction is a vector(x,y) which indicates the orientation of a subunit (helix or loop) within the plane.
DirectionDescriptor
DisulfideBridge	Describes a disulfide bridge.
DisulfideBridgeDescriptor
Elipses	Groups elipses related options
ElipsesDescriptor
Exclude	Excludes elipses from a range of residues.
ExcludeDescriptor
Image	Select options for an image output of the diagram.
ImageDescriptor
ImageMap	Output an image map document.
ImageMapDescriptor
Include	Allows elipses to be included in a range of residues.
IncludeDescriptor
Links	Describes hyperlinks attached to various components of the diagram.
LinksDescriptor
Options	Groups options that can affect how the diagram is rendered.
OptionsDescriptor
Output	Groups options related to the diagram output.
OutputDescriptor
Page	Generates an XML document that describes one diagram.
PageDescriptor
Protein	Describes the protein to be rendered.
ProteinDescriptor
RbdeDiagram	Input file for construction of one diagram.
RbdeDiagramDescriptor
Residue	Links a residue to a URL.
ResidueBackground	Fill color for the background of a residue
ResidueBackgroundDescriptor
ResidueColor	Color one residue on the sequence.
ResidueColorDescriptor
ResidueDescriptor
ResidueShape	Determines how individual residues will be rendered.
ResidueShapeDescriptor
SecondaryStructure	Defines the secondary structure for this protein.
SecondaryStructureDescriptor
Segment	Defines the limits of of segment of secondary structure.
SegmentDescriptor
Spacer	The separation between the first residue of the subunit and the last, on the page.
SpacerDescriptor
Subunit	Each subunit is located on the page according to the location and spacer of the subunit that preceeds it.
SubunitDescriptor
SubunitRef	Links a subunit to a URL.
SubunitRefDescriptor
TmBundle	Use the bundle to layout integral membrane proteins.
TmBundleDescriptor