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Revision as of 15:18, 11 February 2019

hosted by SBGridlogo2.jpg
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 v2.3 has been released on February 11, 2019.
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin ProBiS H2O is a new plugin for identification of conserved waters in protein structures.
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...

Cif keepinmemory

The cif_keepinmemory setting is an experimental feature. When loading a CIF file with cif_keepinmemory=on, then the parsed file is kept in memory and made accessible like a dictionary from the Python API.

New in PyMOL 1.7.8

Examples

import pymol

pymol.cmd.set("cif_keepinmemory")
pymol.cmd.fetch("1ubq", type="cif")

citation_titles = pymol.querying.cif_get_array("1ubq", "_citation.title")

import pprint
pprint.pprint(citation_titles)

Output:

['Structure of ubiquitin refined at 1.8 A resolution.',
 'Comparison of the Three-Dimensional Structures of Human, Yeast, and Oat Ubiquitin',
 'Three-Dimensional Structure of Ubiquitin at 2.8 Angstroms Resolution',
 'Crystallization and Preliminary X-Ray Investigation of Ubiquitin, a Non-Histone Chromosomal Protein',
 'Molecular Conservation of 74 Amino Acid Sequence of Ubiquitin between Cattle and Man']
A Random PyMOL-generated Cover. See Covers.