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|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" | News & Updates
|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" | News & Updates
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! Official Release
| [http://pymol.org PyMOL, AxPyMOL, and JyMOL v1.7.4 have all been released] on December 3, 2014.
|-
! New Plugin
| [[PyANM|PyANM]] is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
|-
|-
! PyMOL Open-Source Fellowship
! PyMOL Open-Source Fellowship
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|-
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! Official Release
! Official Release
| [http://pymol.org PyMOL, AxPyMOL, and JyMOL v1.7.2 have all been released] on August 4, 2014.
| [http://pymol.org PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released] on May 4, 2015.
|-
|-
! Official Release
! New Plugin
| [http://pymol.org PyMOL, AxPyMOL, and JyMOL v1.7 have all been released] today, January 14, 2014.
| [[PyANM|PyANM]] is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
|-
|-
! New Plugin
! New Plugin
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! 3D using Geforce
! 3D using Geforce
| PyMOL can now be [http://forums.geforce.com/default/topic/571604/3d-vision/3d-vision-working-with-qbs-in-opengl-software-using-geforce/2/ 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.
| PyMOL can now be [http://forums.geforce.com/default/topic/571604/3d-vision/3d-vision-working-with-qbs-in-opengl-software-using-geforce/2/ 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.
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! New Software
| [[CMPyMOL]] is a software that interactively visualizes 2D contact maps of proteins in PyMOL.
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! New Script
| [[cgo_arrow]] draws an arrow between two picked atoms.
|-
! Tips & Tricks
| Instructions for [[Movie_pdf|generating movie PDFs]] using .mpg movies from PyMOL.
|-
|-
! Older News
! Older News

Revision as of 09:57, 11 September 2015

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
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...

Bond

bond creates a new bond between two selections, each of which should contain one atom. You can easily create a new bond by selecting two atoms, each with the CTRL-MIDDLE-MOUSE-BUTTON and typing "bond" on the command line.

In order to visualize the newly created bond, lines or sticks have to be shown for both atoms.

USAGE

bond [atom1, atom2 [,order]]

atom1 and atom2 must either be selections (created by the select command, for example) or chosen using the PkAt mouse action (Ctrl+Middle mouse button). order is an optional integer (default is 1).

Example usage: 

bond resi 1 and name NE2, resi 10 and name ND1

PYMOL API

cmd.bond(string atom1, string atom2)

where atom1 and atom2 are selections.

NOTES

The atoms must both be within the same object.

The default behavior is to create a bond between the (lb) and (rb) selections.

SEE ALSO

Unbond, Fuse, Attach, Replace, Remove_picked

A Random PyMOL-generated Cover. See Covers.


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