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Featured Citations

Constructing protein polyhedra via orthogonal chemical interactions. Golub E, Subramanian RH et al. Nature. 2020 Feb 6;578(7793):172-176.

Structure of SAGA and mechanism of TBP deposition on gene promoters. Papai G, Frechard A et al. Nature. 2020 Jan 30;577(7792):711-716.

The inner junction complex of the cilia is an interaction hub that involves tubulin post-translational modifications. Khalifa AAZ, Ichikawa M et al. eLife. 2020 Jan 17;9. pii: e52760.

Architecture of the chromatin remodeler RSC and insights into its nucleosome engagement. Patel AB, Moore CM et al. eLife. 2019 Dec 30;8. pii: e54449.

Molecular basis of force-from-lipids gating in the mechanosensitive channel MscS. Reddy B, Bavi N et al. eLife. 2019 Dec 27;8. pii: e50486.

See also: RCSB PDB Images
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December 23, 2019

The ChimeraX 0.91 production release is available. See the change log for what's new.

October 16, 2019

ChimeraX virtual reality featured in UCSF School of Pharmacy news: VR Drug Discovery Makes Precision Therapy a Reality  [video]

June 20, 2019

ChimeraX virtual reality shown on PBS Newshour: How Close are Scientists to a Universal Flu Vaccine?

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UCSF ChimeraX

UCSF ChimeraX (or simply ChimeraX) is the next-generation molecular visualization program from the Resource for Biocomputing, Visualization, and Informatics (RBVI), following UCSF Chimera. ChimeraX can be downloaded free of charge for academic, government, nonprofit, and personal use. Commercial users, please see licensing.

ChimeraX is developed 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.

Feature Highlight

Morphing Movie

Morphing between atomic structures can be calculated wih the morph command and played back in an animation. This movie shows morphing between two conformations of the FGFR1 kinase domain:

  • inactive structure (PDB 3C4F, chain A)
  • activated structure (PDB 3GQI, chain A) with phosphorylated tyrosines and bound ATP analog
The tyrosine side chains and ATP analog are color-coded by element: light blue carbon, red oxygen, blue nitrogen, and orange phosphorus.

Morphing and other setup was done with the command file kmorph-prep.cxc, followed by interactively positioning the structure and saving the view with the command view name p1 (generally a session would also be saved at this point), then running kmorph-play.cxc to add 2D labels and record the movie.

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Example Image

photosynthetic reaction center

Photosynthetic Reaction Center

The photosynthetic reaction center from a purple sulfur bacterium is shown as a cartoon with “tube” helices and membrane boundaries from the OPM database (Orientations of Proteins in Membranes, entry 1eys). Blue and red balls represent the cytoplasmic and periplasmic sides of the bacterial inner membrane, respectively. The title and other text labels were added with the 2dlabels command and repositioned interactively with the move label mouse mode . ChimeraX session file: prc.cxs

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