Hi Elaine, just worked fine. I guess I used an too old built version for which intersurf surface weren't behaving as standard surface. thank you very much. jd **************************** Dr. Jean-Didier Maréchal Lecturer The Computational Biotechnological Chemistry Team Unitat de Química Física Departament de Química Universitat Autònoma de Barcelona Edifici C.n. 08193 Cerdanyola (Barcelona) Tel: +34.935814936 e-mail: JeanDidier.Marechal@uab.es www: http://asklipio.qf.uab.es 2012/6/5 Elaine Meng <meng@cgl.ucsf.edu>

Hi JD, You can use the menu: Actions... Surface... transparency...[%value]

or the "surftransparency" command, where the intersurf surface can be specified by model number (#N) or by selecting it with Ctrl-click and using the word "sel":

< http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/surftransparency.html

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< http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/atom_spec.html#othermo...

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Also, in Chimera version 1.7 (fairly recent daily build), there is a "transparency" command that can be used on not just surfaces but other items (atoms, ribbons, etc.):

<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/transparency.html>

I hope this helps, Elaine ---------- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco

On Jun 5, 2012, at 12:44 PM, Jean-Didier Maréchal wrote:

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Hi guys, is there a way to change the transparency of intersurf objects? I'd like to have the surface not hiden all the object in behing one given view. thanks a lot, cheers jd