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Index
by N.Guex
& T.Schwede
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Ribbons
Ribbons computation are based on the method developped
by Carson et al. ref
[3]. By default it is a wireframe ribbon representation
of five parallel strands, but you can change the number of strands to
be used (up to 21) in the Ribbons Preferences. The number of strands to
be used during the real time operations can also be changed independently.
If you want nicer images with solid ribbons, you will have to use either
Quickdraw3D (Mac), OpenGL
(PC, SGI) or POV-Ray but in any cases a wireframe
preview is possible if you want to set-up the scene to be rendered on
a computer without Quickdraw3D for later rendering.
You can vary the width and height of the solid ribbon independently for
helices (see difference between Fig.1 and Fig.2), strands and coils; and
you can add an arrow at the C-term position of helices and strands to
show the direction of the chain. The width and height of this arrow is
expressed in percentage of the ribbon width and height.
By default, the top and bottom faces color of the ribbon are taken from
the ribbon color associated to each amino-acid. See the Control
Panel section to know how to change the ribbon color for individual
amino-acids.
In any case, you can bypass those individual colors and provide a color
to be used for all top, bottom or side faces by enabling the corresponding
checkbox and clicking on the associated Color Button of the dialog. For
example,default helices and strands sides colors are grey (as shown in
Fig.1).
Finally, the shape of the helices, strands and coils can be independently
choosed among four possibilities (rectangle, ovoid, top-flat-ovoid or
bottom-fat-ovoid). The possibility to define custom shapes will be added
later.
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Fig.1 Default settings, with helices and strands sides in
grey.
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Fig.2 Height and witdth of strands has been increased while
helices width and height have been set equal to the one defined
for coils. Side of helices is no longer grey.
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Fig.3 Arrows have been removed, and the ribbon has now the
same width for helices, stands and coils. The default gray side
color has been disabled, and an ovoid shape has been selected for
all structures.
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Fig. 3b Same as before but rendered with a metallic texture
in POV-Ray.
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