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Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
To request a new account, email SBGrid at: accounts (@) sbgrid dot org
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) Getting Help
News & Updates
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
Older News See Older News.
Did you know...

Make Figures

= Overview =

This script will aid you in making publication quality figures for the currently displayed scene. It understands a variety of preset "modes" and sizes.


make_figure filename [, mode] [, size (default=900 pixels)] [,opaque]

The parameters are:

filename : The name of the resulting image file.

The extension .png is added automatically.

NOTE: if no further arguments are given, the script generates quick figures for general use:

  • figures are not ray-traced
  • TWO figures at 300 x 300 px, 72 dpi
  • views are rotated 180° about y (front and back view)
  • _front_quick and _back_quick are appended to the filename

mode : Type of figure desired. Possible values are as follows:

single = "single view"
  • one ray-traced 300 dpi figure of the current view

fb = "front and back view"
  • TWO ray-traced 300 dpi figures
  • views are rotated 180° about y
  • _front and _back are appended to the filename

sides ..→
A Random PyMOL-generated Cover. See Covers.