<div dir="ltr"><div><div>Thanks Elaine. I do have the symmetry parameters but not the atoms, alas. How about saving the shape surface model as an mrc map so that I could use an external program to apply the symmetry? Would that be possible?<br><br></div>Regards,<br><br></div> Carmen<br><div><div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature"><div dir="ltr"><div> -------------------------------------------------------------<br> Carmen San Martín, Ph. D. <br> Centro Nacional de Biotecnología (CNB-CSIC)<br> Darwin, 3<br> 28049-Madrid (SPAIN)<br> Email: <a href="mailto:carmen@cnb.csic.es" target="_blank">carmen@cnb.csic.es</a><br> Phone: 34-91-5855450<br> Fax: 34-91-5854506<br> <a href="http://www.cnb.csic.es/" target="_blank">http://www.cnb.csic.es/</a><br> <a href="http://tinyurl.com/carmensanmartinlab" target="_blank">http://tinyurl.com/carmensanmartinlab</a><br> <a href="http://orcid.org/0000-0001-9799-175X" target="_blank">http://orcid.org/0000-0001-9799-175X</a> <br> ------------------------------------------------------------</div></div></div></div>
<br><div class="gmail_quote">On Wed, Jul 1, 2015 at 6:26 PM, Elaine Meng <span dir="ltr"><<a href="mailto:meng@cgl.ucsf.edu" target="_blank">meng@cgl.ucsf.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Carmen,<br>
Sorry, the “sym” command only works on molecule models (atomic coordinates). The “shape” command creates surface models, not atomic coordinates.<br>
<br>
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/sym.html" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/sym.html</a>><br>
<br>
If your shape could instead be approximated by the molecular surface around some set of atoms, you could then use “sym” on those atoms, surface them, and try using the resulting surface(s) as a mask. However, even if you did have such a set of atoms, this would probably be very difficult, since you would still need to specify the symmetry information needed to make copies in the “sym” command (center of symmetry, axis, etc.).<br>
<br>
Best,<br>
Elaine<br>
-----<br>
Elaine C. Meng, Ph.D.<br>
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>
Department of Pharmaceutical Chemistry<br>
University of California, San Francisco<br>
<div class="HOEnZb"><div class="h5"><br>
On Jul 1, 2015, at 2:49 AM, Carmen San Martin <<a href="mailto:carmen@cnb.csic.es">carmen@cnb.csic.es</a>> wrote:<br>
<br>
> Dear all,<br>
> is it possible to generate symmetry-related copies of a surface model created by the shape command? I am interested in masking out certain map regions related by symmetry. I got the right shape at the right place but now cannot figure out how to create the shape symmetry mates. The sym command followed by the model number of my shape complaints that no molecules are specified.<br>
> Thanks,<br>
> Carmen<br>
><br>
<br>
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