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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
Official Release	[AxPyMOL, and JyMO v1.7 have all been released] today, January 14, 2014.
New Plugin	Bondpack is a 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.
New Plugin	GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS.
New Software	CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL.
New Script	cgo_arrow draws an arrow between two picked atoms.
Tips & Tricks	Instructions for generating movie PDFs using .mpg movies from PyMOL.
Older News	See Older News.

Did you know...
ConnectedCloud = Overview = ConnectedCloud grows a cloud of objects that are "connected" through single-linkage clustering. Two objects are "connected" if they are within the user-defined cutoff, radius. It starts with a selection, and grows until no more objects are withing radius Angstroms of the cloud. Let's say we want to find the cloud of docking guesses (blue lines) that are connected to the lowest energy docking pose (red sticks). I call, connectedCloud lig1, lig*, radius=1, doPrint=True and get Find the cloud growing from the red sticks. Consider all blue lines for inclusion. Those in the cloud are shown in red. Notice the small blue cloud above the red was not selected. At no point were those atoms close enough to the currently growing cloud, to be considered. Syntax connectedCloud origSel, subSel, [radius=1, [doPrint=True]] origSel -- the original ..→

A Random PyMOL-generated Cover. See Covers.

Syntax