Main Page

hosted by

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

News & Updates
Selection keywords	New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Official Release	PyMOL v2.0 has been released on September 20, 2017.
Plugin Update	MOLE 2.5 is an updated version of channel analysis software in PyMOL
Official Release	PyMOL v1.8.6 has been released on March 9, 2017.
Official Release	PyMOL v1.8.4 has been released on October 4, 2016.
New Script	dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
New Plugin	LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
Official Release	PyMOL v1.8.0 has been released on Nov 18, 2015.
PyMOL Open-Source Fellowship	Schrödinger is now accepting applications for the PyMOL Open-Source Fellowship program! Details on http://pymol.org/fellowship
Official Release	PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released on May 4, 2015.
New Plugin	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 is a new plugin for rapid analysis of biomacromolecular channels in PyMOL.
3D using Geforce	PyMOL can now be 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	See Older News.

Did you know...
Mesh negative visible If the mesh_negative_visible setting is on, then an isomesh at iso level 3.0 will in addition show the -3.0 contour. The color of the negative contour is defined by the mesh_negative_color setting. The color of the positive contour is defined with the color command, or with the mesh_color setting. The surface_negative_visible and surface_negative_color settings control the same behavior for isosurface objects. Since PyMOL 1.8.4 the negative color can be controlled from the color menu ("C > negative > ..."). Example Show the +/- 3 sigma iso-level mesh ("wire-frame") of a difference density map. fetch 1ubq, diffmap, type=fofc, async=0 isomesh diffmesh, diffmap, 3.0 color green, diffmesh set mesh_negative_color, red set mesh_negative_visible Same, but with a closed surface: fetch 1ubq, diffmap, type=fofc, async=0 isosurface diffsurf, diffmap, 3.0 color green, diffsurf set surface_negative_color, red set surface_negative_visible Color Menu <gallery heights="250px" ..→

A Random PyMOL-generated Cover. See Covers.

Example