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We have a campus-wide license agreement for PyMOL and AxPyMOL.   As a subscribing organization, we have access to the latest version of the software, including beta versions, as well as official documentation for using it.  The license agreement is valid through 12/31/2021.

License Keys

Access to the license keys are limited to current students, faculty, and staff at Stanford.  The license key for PyMOL 2 is located on the Download PyMOL 2 page.  To get the license key for AxPyMOL, please send a request to Grace Baysinger (graceb[at], Aparna Sharma (aparna.sharma[at], or Cristina Flores-Herrera (cfloresh[at] using your @Stanford email address.  Please also include your Stanford ID number in the request.


PyMOL 2 — molecular visualization system (PC, Mac, Linux). Please note: you must be on-campus or connected via VPN.

AxPyMOL - plugin for Windows PowerPoint that enables presentation of 3-D molecular data without having to "tab out" of PowerPoint slides.  Please contact Grace Baysinger,


  • PyMOL Documentation (access limited to subscribers, registration required, request access from Grace Baysinger (graceb[at], Aparna Sharma (aparna.sharma[at], or Cristina Flores-Herrera (cfloresh[at] using your @Stanford email address.