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News & Updates Official Release PyMOL v1.8.2 has been released on April 20, 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... 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.