Main Page

From PyMOLWiki
Revision as of 23:16, 2 January 2016 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) Getting Help
News & Updates
New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
Official Release PyMOL v1.8.0 has been released on Nov 18, 2015.
PyMOL Open-Source Fellowship Schrödinger is now accepting applications for the PyMOL Open-Source Fellowship program! Details on http://pymol.org/fellowship
Official Release PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released on May 4, 2015.
New Plugin PyANM is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
New Plugin Bondpack is 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.
Older News See Older News.
Did you know...

PoseView

Type Python Module
Download scripts/poseview.py
Author(s) Thomas Holder
License BSD-2-Clause
This code has been put under version control in the project Pymol-script-repo

poseview is a PyMOL wrapper for the PoseView program. PoseView generates 2D structure-diagrams of protein-ligand complexes.

Setup

You need the poseview executable and a valid license file. Example for a launcher script which should be saved to /usr/bin/poseview so that PyMOL can find it:

#!/bin/sh
POSEVIEW_PATH="/opt/poseview-1.1.2-Linux-x64"
export BIOSOLVE_LICENSE_FILE="$POSEVIEW_PATH/poseview.lic"
exec "$POSEVIEW_PATH/poseview" "$@"

Usage

poseview [ ligand [, protein [, width [, height [, filename [, exe [, state ]]]]]]]

Example

fetch 1a00, async=0
poseview chain C and resn HEM

Poseviewscreenshot.png

A Random PyMOL-generated Cover. See Covers.