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| | {{Infobox script-repo |
| | |type = plugin |
| | |filename = plugins/resicolor_plugin.py |
| | |author = [[User:Philaltist|Philaltist]] |
| | |license = - |
| | }} |
| | |
| ==Description== | | ==Description== |
| Here is a small plugin to color proteins according to residue type. Save the following text as "resicolor.py" in your somewhere/PyMOL/modules/pmg_tk/startup directory, and it should add itself to the plugin menu at the next pymol startup. This functionality is also available as a script ([[resicolor]]).
| | A small plugin to color proteins according to residue type. This functionality is also available as a script ([[resicolor]]). |
| | |
| <source lang="python">
| |
| #plugin contributed by Philippe Garteiser garteiserp@omrf.org
| |
| from Tkinter import *
| |
| from pymol import cmd
| |
| import tkSimpleDialog
| |
| | |
| def __init__(self):
| |
| # Simply add the menu entry and callback
| |
| self.menuBar.addmenuitem('Plugin', 'command',
| |
| 'resicolor',
| |
| label = 'resicolor',
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| command = lambda s=self : getselection(s))
| |
| | |
| def resicolor(selection):
| |
| if selection: # None is returned for user cancel
| |
| cmd.select ('calcium','resn ca or resn cal')
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| cmd.select ('acid','resn asp or resn glu or resn cgu')
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| cmd.select ('basic','resn arg or resn lys or resn his')
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| cmd.select ('nonpolar','resn met or resn phe or resn pro or resn trp or resn val or resn leu or resn ile or resn ala')
| |
| cmd.select ('polar','resn ser or resn thr or resn asn or resn gln or resn tyr')
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| cmd.select ('cys','resn cys or resn cyx')
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| cmd.select ('backbone','name ca or name n or name c or name o')
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| cmd.select ('none')
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| code={'acid' : 'red' ,
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| 'basic' : 'blue' ,
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| 'nonpolar': 'orange' ,
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| 'polar' : 'green' ,
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| 'cys' : 'yellow'}
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| cmd.select ('none')
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| for elem in code:
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| line='color '+code[elem]+','+elem+'&'+selection
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| print line
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| cmd.do (line)
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| word='color white,backbone &'+selection
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| print word
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| cmd.do (word)
| |
| | |
| def getselection(app):
| |
| selection=tkSimpleDialog.askstring('resicolor',
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| 'Please enter a selection',
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| parent=app.root)
| |
| resicolor(selection)
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|
| |
|
| </source>
| | == Example of use == |
| | If you follow the instructions for the [http://www.pymolwiki.org/index.php/Git_intro Pymol-script-repo], it is available from the Plugin menu. |
|
| |
|
| [[Category:Plugins]] [[Category:Coloring]] | | [[Category:Script_Library]] |
| | [[Category:Structural_Biology_Scripts]] |
| | [[Category:Plugins]] |
| | [[Category:Coloring]] |
| | [[Category:Pymol-script-repo]] |
Description
A small plugin to color proteins according to residue type. This functionality is also available as a script (resicolor).
Example of use
If you follow the instructions for the Pymol-script-repo, it is available from the Plugin menu.