On Fri, Nov 5, 2010 at 6:06 PM, Dr. Christoph Gille <
christoph.gi...@charite.de> wrote:
> Hi Bob,
>
> > The idea behind the requirement is that Jmol needs to know which model is
> to
> > be considered and so which model to use for the surface calculation. I
> > suppose as long as only one model is selected, it should not matter. Let
> me
> > see if I can relax that restriction.
>
> I followed Angles suggestion and
> use the script command frame n.1 before generating the surface.
> After this I send frame all.
> This works very well!
>
>
OK, let's leave it at that for now, then. There are a lot of other things
that can be done with isosurface, and it would not be trivial to get this
right.
> > Can you give me more of a hint as to what STRAP is?
>
> Sure. STRAP is a widely applied protein alignment GUI published in
> 1999. It is a desktop program or a Web-viewer with a
> scripting language. It is used by ViperDB, PDBsum,
> JenaLib and Prodom and a few others.
>
> The strength of STRAP is that it can combine 3D- and sequence
> based alignment methods. The main weakness is that people not
> familiar with drag-and-drop or standard GUI concepts of office-applications
> find it hard to use.
>
> Here are short flash movies to explain Drag'n Drop:
>
> http://www.bioinformatics.org/strap/swf/sequence_features_to_3d.swf
> http://www.bioinformatics.org/strap/swf/selecting_rubber_band.swf
> http://www.bioinformatics.org/strap/swf/drag_protein_into_3D.swf
>
> Ciao
>
> Christoph
>
>
>
>
>
>
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--
Robert M. Hanson
Professor of Chemistry
St. Olaf College
1520 St. Olaf Ave.
Northfield, MN 55057
http://www.stolaf.edu/people/hansonr
phone: 507-786-3107
If nature does not answer first what we want,
it is better to take what answer we get.
-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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