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! Official Release
! Official Release
| [[http://pymol.org|PyMOL, AxPyMOL, and JyMO v1.7 have all been released]] today, January 14, 2014.
| [http://pymol.org|PyMOL, AxPyMOL, and JyMO v1.7 have all been released] today, January 14, 2014.
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! New Plugin
! New Plugin

Revision as of 15:38, 14 January 2014

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...

BiologicalUnit/Quat

Note: PyMOL 1.8 can load biological units from mmCIF files with the assembly setting.

Included in psico
This command or function is available from psico, which is a PyMOL extension.

Module (biomolecule) psico.xtal (biomolecule)

This script does more or less the same as BiologicalUnit. It creates the quaternary structure (BIOMOLECULE 1 assembly) from the REMARK 350 header.

This script is convenient to use because it searches automatically for the PDB file in the current directory, in fetch_path and (if available) in your local PDB mirror.

Also available from psico, but the command is called biomolecule instead of quat.

Example Usage

fetch 3bw1, type=pdb
quat 3bw1
as cartoon

The Code

<source lang="python"> (c) 2010-2011 Thomas Holder, MPI for Developmental Biology

Module for reading REMARK records from PDB files and in particular generate quaterny structure from REMARK 350.

import sys, os from pymol ..→

A Random PyMOL-generated Cover. See Covers.