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== PyMol Wiki Home ==
+
__NOTOC__
You have reached the home of the PyMolWiki, a user-driven web-oriented CMS.
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We provide
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* updates on [http://pymol.sf.net PyMol]
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{| align="center" style="padding-bottom: 3em;"
* a stable user-oriented documentation base
+
|+ style="font-size:210%; font-weight: bold; color:#000000; text-align:center; padding: 5px; margin-bottom: 4px;" | Welcome to the PyMOL Wiki!
* a thorough treatment of the PyMol program
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|- style="text-align:center; font-weight: normal; color: #000000; font-size: 120%; font-family: sans-serif;"
* feature-rich scripts for general PyMol use
+
| The community-run support site for the [http://pymol.org PyMOL] molecular viewer.
 
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|- style="text-align:center; font-weight:normal; color: #000000; font-size: 120%; font-family: sans-serif;"
==News==
+
| To request a new account, email SBGrid at:  accounts (@) sbgrid dot org
* New PyMol Features: [[Examples_of_cartoon_ring_and_cartoon_ladder_settings|Nucleic Acid Representation Settings]] & Examples.
+
|- style="text-align:center; font-weight:bold; color: #000000; font-size: 120%; font-family: sans-serif;"
* Cool new Plug-In: [[Show_NMR_constrains| Show NMR Constrains]].
+
|}
* Check out PyMol's new [[Cartoon#Nucleic_Acid_Representation|Nucleic Acid Rendering]]
 
* Added [[DynoPlot]] script for plotting data within PyMol; an interactive Ramachandran plot.
 
* Added [[Kabsch]] script for optimal alignment of two sets of vectors.
 
* Some details have been released about [[0.99beta11]]'s release and new features.
 
* A new map function is in the beta build, [[Map_Trim]].
 
* Details on how to build [[Peptide_Sequence| peptide sequences]] and [[Nucleic_Acid_Sequence| nucleic acid sequences]] by hand.
 
* New [[Transform_odb]] script to transform coordinates with .odb file from O or LSQMAN
 
 
 
 
 
See our [[Older_News]].
 
 
 
== Links of Interest ==
 
* [[TOPTOC|Top Level Table of Contents]]
 
* [[:Category:FAQ|Frequently Asked Questions]] -- new!
 
* [[PyMolWiki:Community_Portal| How to get involved!]] -- read me if you want to add something
 
* [[:Category:Script Library| Script Library]] -- add one! (rTools info!)
 
* [[:Category:Commands|PyMol Commands]] (>130 documented!)
 
* [[:Special:Allpages| All Pages]]
 
* [[:Category:Plugins|Plugins]]
 
* [[:Special:Categories| See All Categories]]
 
 
 
  
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{| align="center" width="45%" style="background: #FFFFFF; margin-bottom: 4em; border-bottom: 1px solid #AFB29E; border-left: 1px solid #AFB29E; border-right: 1px solid #AFB29E;"
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|+ style="font-size: 1.4em; font-weight: bold; color: #FFFFFF; text-align:center; background: #000000; padding-top:0.5em; padding-bottom: 0.25em; border-top: 2px solid #000000; border-bottom: 1px solid #fff;" |Quick Links
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|-
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| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[:Category:Tutorials|Tutorials]]''' || '''[[TOPTOC|Table of Contents]]''' || '''[[:Category:Commands|Commands]]'''
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|-
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| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[:Category:Script_Library|Script Library]]''' || '''[[:Category:Plugins|Plugins]]''' || '''[[:Category:FAQ|FAQ]]'''
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|-
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| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[Gallery]]''' | '''[[Covers]]'''
 +
||'''[[CheatSheet|PyMOL Cheat Sheet]]''' (''[[Media:PymolRef.pdf|PDF]]'')
 +
||'''[[PyMOL_mailing_list|Getting Help]]'''
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|}
  
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{| width="100%"
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| style="vertical-align: top; width: 40%" |
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{| class="jtable" style="float: left; width: 90%;"
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|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" | News & Updates
 +
|-
 +
! Official Release
 +
| [https://pymol.org PyMOL v2.5 has been released] on May 10, 2021.
 +
|-
 +
! Python 3
 +
| New [[2to3|Python 3 compatibility guide]] for scripts and plugins
 +
|-
 +
! POSF
 +
| [https://pymol.org/fellowship New PyMOL fellows announced for 2018-2019]
 +
|-
 +
! Tutorial
 +
| [[Plugins Tutorial]] updated for PyQt5
 +
|-
 +
! New Plugin
 +
| [[PICv|PICv]] is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
 +
|-
 +
! Selection keywords
 +
| New [[Selection Algebra|polymer.protein and polymer.nucleic]] selection keywords. Thanks everyone who participated in the [https://goo.gl/forms/r0Ck03VTytZQxN4A2 poll]!
 +
|-
 +
! Plugin Update
 +
| [[MOLE 2.0: advanced approach for analysis of biomacromolecular channels|MOLE 2.5]] is an updated version of channel analysis software in PyMOL
 +
|-
 +
! New Script
 +
| [[dssr_block]] is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
 +
|-
 +
! Older News
 +
| See [[Older_News|Older News]].
 +
|}
 +
|style="vertical-align: top; width: 40%"|
 +
{| class="jtable" style="float: right; width: 90%"
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|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" |Did you know...
 +
|-
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Latest revision as of 03:21, 22 June 2021

hosted by SBGridlogo2.jpg
Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
To request a new account, email SBGrid at: accounts (@) sbgrid dot org
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) Getting Help
News & Updates
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
Older News See Older News.
Did you know...

Cartoon highlight color

== Overview ==

This setting allows one to specify a contrasting color for the interior face of helices and the side faces of strands.

Settings

set cartoon_highlight_color, grey50   # sets cartoon highlight color to middle-grey
set cartoon_highlight_color, -1      # turns this feature off (default)

Examples

Open the images to actually see the details!

A Random PyMOL-generated Cover. See Covers.