Hello John,<div><br></div><div>What I did to configure Chimera on my Linux box was to go into Favorites-&gt;Preferences.</div><div>In the window that opens, choose New Molecules from the drop-down box Category. You</div><div>
can then play with the options there; for what you need, I guess set ribbon display off,</div><div>atom style as ball, bond style as stick. And maybe also turn off the smart initial display.</div><div><br></div><div>Hope this helps,</div>
<div>Tim</div><div><br><div class="gmail_quote">On Thu, Aug 12, 2010 at 11:21 AM, Beale, John <span dir="ltr">&lt;<a href="mailto:John.Beale@stlcop.edu">John.Beale@stlcop.edu</a>&gt;</span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
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<p class="MsoNormal"><span style="font-size:11.0pt">I have a new installation of Chimera on a Linux box. I am working with a protein/nucleic acid complex. When I start the program with “chimera file.pdb” the ribbon representation of the structure is shown. Also, a plank representation of the nucleic acid is shown.  I have to hide the ribbon and select “Actions -&gt; Atoms/Bonds -&gt; Show” to see the atoms. Can someone tell me how to change the startup options so that the ribbon and planks are not automatically generated and that the atoms/bonds are shown by default?</span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"> </span></p><p class="MsoNormal"><span style="font-size:11.0pt">Thanks!</span></p><p class="MsoNormal"><span style="font-size:11.0pt"> </span></p><p class="MsoNormal"><span style="font-size:11.0pt">John</span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"> </span></p><div><p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">John M. Beale, Jr., Ph.D.</span></b></p><p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">Professor of Medicinal Chemistry and Pharmacognosy</span></b></p>
<p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">Saint Louis College of Pharmacy</span></b></p><p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">4588 Parkview Place</span></b></p><p class="MsoNormal">
<b><span style="font-size:11.0pt;color:#C00000">Saint Louis, Missouri  63110</span></b></p><p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">314-446-8461</span></b></p><p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">Cell: 314-315-0409</span></b></p>
<p class="MsoNormal"><b><span style="font-size:11.0pt;color:#C00000">FAX: 314-446-8460</span></b></p><p class="MsoNormal"><b><span style="font-size:11.0pt"><a href="mailto:jbeale@stlcop.edu" target="_blank">jbeale@stlcop.edu</a></span></b></p>
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