Main Page

From PyMOLWiki
Revision as of 15:38, 14 January 2014 by Inchoate (talk | contribs)
Jump to navigation Jump to search
Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
New accounts: email jason (dot) vertrees (@) gmail dot com
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) GoogleSearch
News & Updates
Official Release PyMOL, AxPyMOL, and JyMO v1.7 have all been released] today, January 14, 2014.
New Plugin Bondpack is a 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.
New Plugin GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS.
New Software CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL.
New Script cgo_arrow draws an arrow between two picked atoms.
Tips & Tricks Instructions for generating movie PDFs using .mpg movies from PyMOL.
Older News See Older News.
Did you know...

Jump

Type Python Script
Download jump.py
Author(s) Sean M. Law
License -
This code has been put under version control in the project Pymol-script-repo

Description

In the case of movies or simulation trajectories, it is often useful to quickly jump between different frames but not necessarily in any order. This script allows the user to specify a list of frames and flipping through the set of frames is controlled by a user-defined keystroke (limited to those available through the Set Key command). This script is a nice tool for identifying different protein states from a simulation and can be used in conjunction with the Modevectors script in a very useful way by first characterizing the directionality of the movements (using Modevectors) and then visualizing the change directly using this script.

Note: This script also requires the Check Key script!


Usage

load the script using the run command

jump [frame1 [,...frameN [,sleep=0.1 [,x=1 [,key='pgdn']]]]]

Example

<source lang="python"> j ..→

A Random PyMOL-generated Cover. See Covers.