http://wiki.docking.org/index.php?action=history&feed=atom&title=Chimera_Tutorial_%28Delta_opioid_receptor%29 2026-04-16T21:30:43Z Revision history for this page on the wiki MediaWiki 1.39.1 http://wiki.docking.org/index.php?title=Chimera_Tutorial_(Delta_opioid_receptor)&diff=15788&oldid=prev 2024-05-02T18:06:36Z

<p>asdf</p> <table style="background-color: #fff; color: #202122;" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:06, 2 May 2024</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l76">Line 76:</td> <td colspan="2" class="diff-lineno">Line 76:</td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “~hbonds”</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “~hbonds”</div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[Category:Tutorial]]</ins></div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[Category:Chimera]]</ins></div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[Category:Visualization]]</ins></div></td></tr> <!-- diff cache key wikidb:diff::1.12:old-10356:rev-15788 --> </table>

Frodo http://wiki.docking.org/index.php?title=Chimera_Tutorial_(Delta_opioid_receptor)&diff=10356&oldid=prev 2017-10-02T16:16:03Z

<p></p> <table style="background-color: #fff; color: #202122;" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 16:16, 2 October 2017</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l41">Line 41:</td> <td colspan="2" class="diff-lineno">Line 41:</td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “rlabel sel”</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “rlabel sel”</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>   “color purple ,l sel”</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>   “color purple,l sel”</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “sel sel | #0:EJ4@O??,N??”</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>   “sel sel | #0:EJ4@O??,N??”</div></td></tr> </table>

TBalius http://wiki.docking.org/index.php?title=Chimera_Tutorial_(Delta_opioid_receptor)&diff=9829&oldid=prev 2017-01-09T18:16:58Z

<p>Created page with &quot;Delta opioid receptor By Reed Stein, 2016 PSPG bootcamp at UCSF. 1. Open Chimera 2. Select an atom or residue by holding CTRL and clicking 3. Rotate the protein by clickin...&quot;</p> <p><b>New page</b></p><div>Delta opioid receptor<br /> <br /> By Reed Stein, 2016 PSPG bootcamp at UCSF.<br /> <br /> 1. Open Chimera<br /> <br /> 2. Select an atom or residue by holding CTRL and clicking<br /> <br /> 3. Rotate the protein by clicking anywhere on the protein and swiping on the trackpad<br /> <br /> 4. Zoom in/out by clicking anywhere with two fingers and swiping the trackpad<br /> <br /> 5. Translate the protein by clicking on it with three fingers and swiping the trackpad<br /> <br /> 6. Favorites → Command Line<br /> <br /> 7. Type: “open 4N6H” (delta-opioid receptor bound to the antagonist, naltrindole)<br /> <br /> “sel #0:37-338:HOH,NA,EJ4”<br /> <br /> “sel invert sel”<br /> <br /> “del sel”<br /> <br /> “preset app int 1”<br /> <br /> “background solid white”<br /> <br /> “turn x 1 90”<br /> <br /> “turn y 1 270”<br /> <br /> “center ligand”<br /> <br /> “sel ligand Z&lt;5 &amp; polar”<br /> <br /> “sel sel | :HOH &amp; ligand Z&lt;5”<br /> <br /> “disp sel”<br /> <br /> “rlabel sel”<br /> <br /> “color purple ,l sel”<br /> <br /> “sel sel | #0:EJ4@O??,N??”<br /> <br /> “hbonds selRestrict sel intraRes false intermodel false showDist true color orange”<br /> <br /> “scale 1.02 50; wait; transp 80,r; wait; turn y 1 360”<br /> <br /> “col orange ligand”<br /> <br /> “col byhet ligand”<br /> <br /> “surface ligand”<br /> <br /> “sel ligand Z&lt;5”<br /> <br /> “repr sphere sel”<br /> <br /> “turn y 1 360”<br /> <br /> “repr stick sel”<br /> <br /> “transp 0”<br /> <br /> “sel #0”<br /> <br /> “rangecolor bfactor,r key 0 blue 25 white 50 red sel”<br /> <br /> “sel ligand”<br /> <br /> “~surface sel”<br /> <br /> “~rlabel sel”<br /> <br /> “~hbonds”</div>

TBalius