Difference between revisions of "Main Page"

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| [https://pymol.org PyMOL v2.3 has been released] on February 11, 2019.
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| [https://pymol.org PyMOL v3.0 has been released] on March 12, 2024.
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| [[CavitOmiX|CavitOmiX]] calculate [https://innophore.com Catalophore™ cavities], predict protein structures with [https://www.nvidia.com/en-us/gpu-cloud/bionemo OpenFold by NVIDIA-BioNeMo], [https://ai.facebook.com/blog/protein-folding-esmfold-metagenomics/ ESMFold] and retrieve [https://www.deepmind.com/research/highlighted-research/alphafold Alphafold] models
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! Official Release
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| [https://pymol.org PyMOL v2.5 has been released] on May 10, 2021.
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! Python 3
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! POSF
 
! POSF
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| [https://pymol.org/fellowship New PyMOL fellows announced for 2018-2019]
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| [https://pymol.org/fellowship New PyMOL fellowship announced for 2022-2023]
 
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| [[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

Latest revision as of 12:54, 12 March 2024

hosted by SBGridlogo2.jpg
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 v3.0 has been released on March 12, 2024.
New Plugin CavitOmiX calculate Catalophore™ cavities, predict protein structures with OpenFold by NVIDIA-BioNeMo, ESMFold and retrieve Alphafold models
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellowship announced for 2022-2023
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...

Update

update transfers coordinates from one selection to another.

USAGE

update (target-selection),(source-selection)

PYMOL API

cmd.update( target ,source [,target_state=0 [,source_state=0 [,matchmaker=1 [,quiet=1 [,_self=cmd ]]]]]] )

ARGUMENTS

  • matchmaker = integer: how to match atom pairs {default: 1}
    • 0: assume that atoms are stored in the identical order
    • 1: match based on all atom identifiers (segi,chain,resn,resi,name,alt)
    • 2: match based on ID
    • 3: match based on rank
    • 4: match based on index

Note that the meaning of matchmaker=0 differs in update and fit (also rms, rms_cur, ...)!

EXAMPLES

update target,(variant)

NOTES

Currently, this applies across all pairs of states. Fine control will be added later.

SEE ALSO

Cmd load

A Random PyMOL-generated Cover. See Covers.


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