note that "frame all" there does nothing -- just shows frame 1 (unless that
receptor file has more than one model)
On Mon, Mar 14, 2011 at 10:07 AM, <[email protected]> wrote:
> Following instructions provided by Ángel Herráez, here is an easy "recipe"
> to show a docking result, i.e. a receptor-ligand model (pdb receptor,
> pdbqt ligand generated by Autodock).
>
> I work with two differente files, my first approach was with the receptor
> and the ligand structures in the same file. Managing two files, we are
> able to define different settings for the receptor and for the ligand.
>
> <script>
> jmolInitialize("./jmol");
> jmolCheckBrowser("popup", "./browsercheck", "onClick");
> jmolApplet(300, 'set appendNew false; load "receptor.pdb"; cpk
> off; wireframe off; cartoon; color cartoons structure; frame all;
> load append "ligand.pdbqt"');
> </script>
>
> Best regards.
>
> > Hello, i would like to find examples about how to define default values
> > for a receptor-ligand model (pdb format).
> >
> > <script>
> > jmolApplet(400, "load 1.1_1.1_1__receptor.pdb");
> > </script>
> >
> > For us is useful to load the applet showing "ribbons" and "bonds" for the
> > receptor and "bonds" only for the ligand.
> >
> > Are any available Jmol example settings with receptor-ligand models?
> > Thank you.
> >
> >
> >
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>
>
>
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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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