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News & Updates 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... 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.