Search
Bluesky

SBGridTV
Button for mobile navigation
Join us

Supported Applications

ChimeraX

  • Description

    a tool of the next-generation molecular visualization program from the Resource for Biocomputing, Visualization, and Informatics (RBVI), following UCSF Chimera. Compared to Chimera, ChimeraX has improved graphics (e.g. interactive ambient shadows); faster handling of large structures (millions of atoms); and a more modern, single-window user interface.

  • Usage

    To list all executables provided by ChimeraX, run: $ sbgrid-list chimerax Copy to clipboard

  • Usage Notes

    This ChimeraX alpha release is not currently available for CentOS 6 linux.

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install chimerax Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • Primary Citation*

    T. D. Goddard, C. C. Huang, E. C. Meng, E. F. Pettersen, G. S. Couch, J. H. Morris, and T. E. Ferrin. 2018. UCSF ChimeraX: Meeting modern challenges in visualization and analysis. Protein Science. 27(1): 14-25.

    E. F. Pettersen, T. D. Goddard, C. C. Huang, E. C. Meng, G. S. Couch, T. I. Croll, J. H. Morris, and T. E. Ferrin. 2021. UCSF ChimeraX: Structure visualization for researchers, educators, and developers. Protein Science. 30(1): 70-82.


    • *Full citation information available through

  • Citation Note

    Acknowledge ChimeraX with: "Molecular graphics and analyses performed with UCSF ChimeraX, developed by the Resource for Biocomputing, Visualization, and Informatics at the University of California, San Francisco, with support from National Institutes of Health R01-GM129325 and the Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases."

    You may also cite the ChimeraX home page.

  • Webinars

    AlphaFold protein structures & ChimeraX cryoEM modeling

    Presenter: Tom Goddard, UCSF Resource for Biocomputing, Visualization, and Informatics - Topic: Using AlphaFold protein structures in ChimeraX for cryoEM modeling

    Linked to presented materials: https://www.rbvi.ucsf.edu/chimerax/data/sbgrid-mar2022/alphafold_pae.html

    Learn more on the ChimeraX website:
    https://www.rbvi.ucsf.edu/chimerax/data/alphafold-nov2021/af_sbgrid.html

    This talk was presented as part of the SBGrid Spring Mini-series - Cryo-electron microscopy of membrane proteins: from sample to structure. See the full series lineup at https://sbgrid.org/webinars/

    Organized by
    Prof. Jamaine Davis, Meharry Medical College
    Prof. Piotr Sliz, Harvard Medical School
    Prof. Patrick Sexton, ARC Centre for Cryo-electron Microscopy of Membrane Proteins, Monash University

    Recorded on March 29, 2022

    Using AlphaFold protein structures in ChimeraX for cryoEM modeling

    Topic: Using AlphaFold protein structures in ChimeraX for cryoEM modeling

    Presenter: Tom Goddard, UCSF Resource for Biocomputing, Visualization, and Informatics

    Q&A session also includes Shaun Rawson, who presented during this session on "Effective on-the-fly and downstream processing of CryoEM data." See https://youtu.be/ra2sVFEPtN8

    Learn more on the ChimeraX website:
    https://www.rbvi.ucsf.edu/chimerax/data/alphafold-nov2021/af_sbgrid.html

    This talk was presented as part of the SBGrid Australasian III Mini-series - CryoEM: from Sample to Structure and should appeal to both novice and expert structural biologists.
    See the full mini-series lineup at https://sbgrid.org/news/sbgrid-university-otago-webinar-series.

    ChimeraX

    Topic: Making Augmented Reality Videos with ChimeraX
    Presenter: Tom Goddard, University of California, San Francisco, Resource for Biocomputing, Visualization, and Informatics

    The Zoom recording of this presentation is pretty choppy. We recommend you also check out the video Tom recorded and posted on his own channel here: https://youtu.be/dKNbRRRFhqY

    Slides from talk available at https://www.rbvi.ucsf.edu/chimerax/data/sbgrid-july2020/

    Host: Pete Meyer
    Recorded on July 7, 2020

    ChimeraX

    Topic: Movie Making for cryoEM using ChimeraX
    Presenter: Tom Goddard, Programmer/Analyst, UCSF Resource for Biocomputing, Visualization, and Informatics

    Hosted by Pete Meyer
    Recorded on April 11, 2017

  • Keywords

    Electron Microscopy, Structure Visualization & Analysis

  • Default Versions

    Linux 64:  1.8 (6 bytes)
    OS X INTEL:  1.8 (1.9 GB)

  • Other Versions

      Linux 64:

      1.3 (1.5 GB) , 1.3_c8 (1.5 GB) , 1.3_scipion (1.3 GB) , 1.4 (1.5 GB) , 1.5 (1.3 KB) , 1.5_c8 (1.4 GB) , 1.5_c9 (1.4 GB) , 1.6.1 (1.3 KB) , 1.6.1_c8 (1.7 GB) , 1.6.1_c9 (1.6 GB) , 1.7 (1.8 GB) , 1.7.1_c8 (1.7 GB) , 1.8_c8 (2.0 GB) , 1.8_c9 (2.2 GB) , 20220407 (1.4 GB) , 20230908_c8 (3.2 GB) , 20230908_c9 (3.2 GB)

    • OS X INTEL:

      1.3 (1.1 GB) , 1.4 (1.1 GB) , 1.4_sig (1.2 GB) , 1.5 (1.3 GB) , 1.5_sig (1.3 GB) , 1.6.1 (1.6 GB) , 1.7 (1.7 GB) , 1.7.1 (1.2 GB) , 20230908 (1.6 GB)

  • Developers

    Conrad Huang, Elaine Meng, Eric Pettersen, Greg Couch, John Morris, Thomas Ferrin, Thomas Goddard

Scroll