View basic PyMOL installation instructions. More detailed instructions are available for incentive PyMOL subscribers.

View supported operating systems and hardware.

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Community-Sponsored Resources

The PyMOLWiki

    PyMOLWiki - Visit the PyMOLWiki for tutorials, scripts, answers to frequently asked questions, and more. A user-maintained knowledge base, the PyMOLWiki is full of helpful information.

    PyMOL Users Mailing List - Users can also subscribe to the PyMOL Users Mailing List to participate in conversations with a dedicated base of knowledgeable users, and to stay up-to-date on the latest PyMOL tips and news. Thousands of archived conversations can also be browsed through this Mailing List.


    Citing PyMOL, AxPyMOL, and JyMOL

    Please see citation instructions for publications.


    Links to External Sites

    PyMOL Scripts, Programs, and Tips

    Cameron Mura's PyMOL Page: includes helpful examples
    eMovie: a storyboard-based tool for making molecular movies: by Eran Hodis, Gideon Schreiber, Kristian Rother and Joel L. Sussman
    Robert Campbell's PyMOL Script Repository: a great collection of scripts for coloring and crystallography.
    Kristian Rother's Scripts at Bioinformatik: including ScriptBox, a one-click script launching tool.
    Gareth Stockwell's PyMOL Scripts at the EBI: density slider, rendering, movies, etc.
    Movie HOWTO page (David Cooper)

    Open-Source PyMOL Ports

    Fink: Open-Source PyMOL for Mac OS X.
    GNU/Darwin: Michael Love's port of Open-Source PyMOL and many other scientific software packages.
    Debian:Open-Source PyMOL for Debian (Ubuntu).
    Fedora Open-Source PyMOL for Fedora (RedHat).

    Tools Enhanced with PyMOL: Open-Source and Open-Access

    DynMap: a python- based program that generates maps of functional groups in a protein and visualizes them using dynamic parameters (Giacomo Bastianelli)
    Sequence to Structure: display, manipulate, and interconnect RNA data from a sequence to structure (Fabrice Jossinet)
    STRAP: sequence alignment tool (Christophe Gille)
    NUCCYL: high-quality nucleic acid cartoons (Luca Jovine)

    Tools Enhanced with PyMOL: Closed-Source and Restricted Access

    Flexweb: Analysis of Flexibility in Biomolecules and Networks: provides PyMOL scripts for analyzing protein flexibility and dynamics.
    PLANET: A Metaphorics Cabinet Server (Metaphorics LLC)

    Image and Animation Galleries

    The Yale Morph Server: using PyMOL for some animations.
    AISMIG: An Interactive Server-side Molecular Image Generator

    Software Packages that Interoperate with PyMOL

    Maestro (Schrödinger): PyMOL reads Maestro files; a Maestro Plugin is available.
    CCP4: a top crystallography package. PyMOL reads binary CCP4 maps.
    PHENIX: another top crystallography package; PyMOL integrates with PHENIX in various ways.
    CNS: another top crystallography package; PyMOL reads ASCII format CNS / X-PLOR maps.
    Molscript (Avatar Software): although PyMOL supercedes Molscript in many ways, Molscript still generates uniquely beautiful geometries that can be fed into PyMOL (or Raster3D) for viewing and rendering.
    MMTK: a Python-based Molecular Modeling Tool-Kit