https://pymolwiki.org/index.php?title=Ribosome_PyMOL_Plugin&feed=atom&action=history
Ribosome PyMOL Plugin - Revision history
2024-03-28T14:48:51Z
Revision history for this page on the wiki
MediaWiki 1.35.7
https://pymolwiki.org/index.php?title=Ribosome_PyMOL_Plugin&diff=12047&oldid=prev
Speleo3: fix download link
2015-07-24T15:23:29Z
<p>fix download link</p>
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<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 15:23, 24 July 2015</td>
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<tr><td class='diff-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>|<del class="diffchange diffchange-inline">filename </del>= <del class="diffchange diffchange-inline">plugins</del>/<del class="diffchange diffchange-inline">ribosome_plugin</del>.<del class="diffchange diffchange-inline">py</del></div></td><td class='diff-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 class="diffchange diffchange-inline">download </ins>= <ins class="diffchange diffchange-inline">https:</ins>/<ins class="diffchange diffchange-inline">/github</ins>.<ins class="diffchange diffchange-inline">com/abelew/ribosome_pymol</ins></div></td></tr>
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Speleo3
https://pymolwiki.org/index.php?title=Ribosome_PyMOL_Plugin&diff=12046&oldid=prev
Abelew: Created page with "{{Infobox script-repo |type = plugin |filename = plugins/ribosome_plugin.py |author = abelew |license = GPLv2 }} ==Description== A small plugin conta..."
2015-07-24T14:54:16Z
<p>Created page with "{{Infobox script-repo |type = plugin |filename = plugins/ribosome_plugin.py |author = <a href="/index.php?title=User:Abelew&action=edit&redlink=1" class="new" title="User:Abelew (page does not exist)">abelew</a> |license = GPLv2 }} ==Description== A small plugin conta..."</p>
<p><b>New page</b></p><div>{{Infobox script-repo<br />
|type = plugin<br />
|filename = plugins/ribosome_plugin.py<br />
|author = [[User:abelew|abelew]]<br />
|license = GPLv2 <br />
}}<br />
<br />
==Description==<br />
A small plugin containing functions to make working with multi-pdb structures easier, most notably ribosomes.<br />
The menu options include a call-out to a csv file containing all (as of ~2012) the extant pdb entries with<br />
ribosomal structures.<br />
It includes functionality to color modified bases (pseudouridines and methyls) for those<br />
species I found referenced annotations.<br />
Similarly, it includes helix definitions using the comparative rna web site:<br />
http://www.rna.icmb.utexas.edu/ for those species that I wanted to play with the tRNA entrance tunnel.<br />
<br />
== Example of use ==<br />
Perform a git pull using the instructions at: https://github.com/abelew/ribosome_pymol<br />
Depending on your installation of pymol, you may need to set the environment variable 'PYMOL_HOME' in order for the<br />
plugin installer to succeed.<br />
Once complete, click on 'Plugin -> Ribosome' and to view my favorite ribosome:<br />
'Ribosomes by species' -> 'Saccharomyces cerevisiae' -> 'Yusupov 2011'<br />
"The Eukaryotic Ribosome at 3.0A resolution."<br />
For extra fun, click 'Helices' and take a tour of the yeast ribosome!<br />
<br />
[[Category:Script_Library]]<br />
[[Category:Structural_Biology_Scripts]]<br />
[[Category:Plugins]]<br />
[[Category:Coloring]]<br />
[[Category:Pymol-script-repo]]</div>
Abelew