https://wiki.pymol.org/index.php?action=history&feed=atom&title=Ribosome_PyMOL_PluginRibosome PyMOL Plugin - Revision history2026-07-24T22:46:20ZRevision history for this page on the wikiMediaWiki 1.35.1https://wiki.pymol.org/index.php?title=Ribosome_PyMOL_Plugin&diff=12947&oldid=prevBell: 2 revisions2015-08-14T17:32:15Z<p>2 revisions</p>
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</td></tr></table>Bellhttps://wiki.pymol.org/index.php?title=Ribosome_PyMOL_Plugin&diff=12946&oldid=prevSpeleo3: fix download link2015-07-24T15:23:29Z<p>fix download link</p>
<p><b>New page</b></p><div>{{Infobox script-repo<br />
|type = plugin<br />
|download = https://github.com/abelew/ribosome_pymol<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]]</div>Speleo3