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! New Plugin
| [[ProBiS_H2O|ProBiS H2O]] is a new plugin for identification of conserved waters in protein structures.
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| [[PICv|PICv]] is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
 
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! Selection keywords
 
! Selection keywords

Revision as of 03:05, 1 March 2021

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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 v2.4 has been released on May 20, 2020.
Python 3 New Python 3 compatibility guide for scripts and plugins
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 PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
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...

Rigimol.morph

The morph command is an incentive PyMOL feature (not available in open-source version). Given a two-state object, morph can create an interpolated trajectory from the first to the second conformation.

Notice: There is a new morph command in PyMOL 1.6

Usage

morph source, target [, first [, last [, refinement [, async [, steps ]]]]]

Arguments

  • source = string: name of two-state input object
  • target = string: name of output object to create
  • first = int: start state of source {default: 1}
  • last = int: end state of source {default: 2}
  • refinement = int: number of sculpting refinement cycles to clean distorted intermediates {default: 10}
  • steps = int: number of states for target object {default: 30}

Warning: arguments first, last and steps new in PyMOL 1.5 (up to 1.4 they are always at default values)

Example

<syntaxhighlight lang="python">

  1. get open and closed conformation of adenylate kinase

fetch 1ake 4ake, async=0

  1. make two state object

align 1ake and chain A, 4ake and chain A, ..→

A Random PyMOL-generated Cover. See Covers.