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News & Updates
Official Release PyMOL v2.1 has been released on March 13, 2018.
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
New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
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...

Load aln

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

Module psico.importing

load_aln loads a pairwise sequence alignment file as an alignment object into PyMOL.

Installation

load_aln is available from the psico package and requires biopython.

All dependencies are available from Anaconda Cloud:

conda install -c schrodinger pymol
conda install -c schrodinger pymol-psico
conda install biopython

Usage

load_aln filename [, object [, mobile [, target
    [, mobile_id [, target_id [, format [, transform ]]]]]]]

Arguments

  • filename = str: alignment file
  • object = str: name of the object {default: filename prefix}
  • mobile, target = str: atom selections {default: ids from alignment file}
  • mobile_id, target_id = str: ids from alignment file {default: first two}
  • format = str: file format, see http://biopython.org/wiki/AlignIO {default: guess from first line in file}
  • transform = 0/1: superpose mobile on target (using fit) {default: 0}

== ..→

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