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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... Protect protect protects a set of atoms from tranformations performed using the editing features. This is most useful when you are modifying an internal portion of a chain or cycle and do not wish to affect the rest of the molecule. USAGE protect (selection) PYMOL API cmd.protect(string selection) Example This example makes a very cool little, and fake, molecular movie. Copy/paste this into PyMOL: <source lang="python"> load $PYMOL_PATH/test/dat/pept.pdb, obj create the fake trajectory (of states) for a in range(2,31): cmd.create("obj","obj",1,a) remove the bond unbond 5/C, 6/N This protects everything but all atoms witing 4 Ang. of residue 5's carbon and residue 6's nitrogen. protect not ((5/C or 6/N) extend 4) do some quick sculpting sculpt_activate obj, 30 sculpt_iterate obj, 30, 100 smooth obj, 30, 3 then program a bond-break/re-form movie mset 1 x30 1 -30 30 x30 30 -1 mdo 45: unbond 5/C, 6/N, quiet=1 mdo 100: bond 5/C, 6/N, quiet=1 frame 100 as sticks orient ..→

A Random PyMOL-generated Cover. See Covers.