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Revision as of 11:21, 14 November 2018

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Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
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News & Updates
Tutorial	Plugins Tutorial updated for PyQt5
Official Release	PyMOL v2.2 has been released on July 24, 2018.
POSF	PyMOL Open-Source Fellowship program accepting applications for 2018-2019
New Plugin	ProBiS H2O is a new plugin for identification of conserved waters in protein structures.
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...
Motif Small script to show backbone motifs. Use like "motif 10-12" to show a segment from residues 10 to 12. The (optional) chain argument is the chain letter, but the output lists the chain along with the residue, so it's not essential to use this. When run, the output looks like this (for pdbid 1arb): PyMOL>motif 10-12 VAL-10 : ( -62, -31 ) AR VAL-11 : ( -72, -8 ) AR CYS-12 : ( -70, 170 ) BR The "AR", "BR", "AL", "BL" are conformation symbols, and cover quite large regions of the Ramachandran plot. to change them, change the typemap. <source lang="python"> very rough bounds! typemap = { (-180,0, 90, 180) : "BR", (-150, -30, -60, 60) : "AR", (0, 180, 90, 180) : "BL", (30, 150, -60, 60) : "AL" } def determinetype(phipsi): phi, psi = phipsi for bound in typemap: if bound[0] < phi < bound[1] and bound[2] < psi < bound[3]: return typemap[bound] return "?" def my_phi_psi(selection): r = cmd.get_phipsi(selection) if r is not None: keys = r.keys() ..→

A Random PyMOL-generated Cover. See Covers.

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 {| class="jtable" style="float: left; width: 90%;"
 |+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" | News &amp; Updates
+|-
+! Tutorial
+| [[Plugins Tutorial]] updated for PyQt5
 |-
 ! Official Release
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 ! New Script
 | [[dssr_block]] is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
-|-
-! New Plugin
-| [[Lisica|LiSiCA]] is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
-|-
-! New Plugin
-| [[PyANM|PyANM]] is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
-|-
-! New Plugin
-| [[Bondpack]] is a collection of PyMOL plugins for easy visualization of atomic bonds.
-|-
-! New Plugin
-| [[MOLE 2.0: advanced approach for analysis of biomacromolecular channels|MOLE 2.0]] is a new plugin for rapid analysis of biomacromolecular channels in PyMOL.
-|-
-! 3D using Geforce
-| PyMOL can now be [http://forums.geforce.com/default/topic/571604/3d-vision/3d-vision-working-with-qbs-in-opengl-software-using-geforce/2/ visualized in 3D using Nvidia GeForce video cards] (series 400+) with 120Hz monitors and Nvidia 3D Vision, this was previously only possible with Quadro video cards.
 |-
 ! Older News