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Structural motifs for subtype-specific pH-sensitive gating of vertebrate otopetrin proton channels. Teng B, Kaplan JP et al. eLife. 2022 Aug 3;11:e77946.

Chikungunya virus assembly and budding visualized in situ using cryogenic electron tomography. Chmielewski D, Schmid MF et al. Nat Microbiol. 2022 Aug;7(8):1270-1279.

In situ architecture of the ciliary base reveals the stepwise assembly of intraflagellar transport trains. van den Hoek H, Klena N et al. Science. 2022 Jul 29;377(6605):543-548.

The cryo-EM structures of two amphibian antimicrobial cross-β amyloid fibrils. Bücker R, Seuring C et al. Nat Commun. 2022 Jul 27;13(1):4356.

Structure of the nutrient-sensing hub GATOR2. Valenstein ML, Rogala KB et al. Nature. 2022 Jul 21;607(7919):610–616.

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News

June 10, 2022

The ChimeraX 1.4 production release is available. See the change log for what's new. ChimeraX 1.4 is the last release to support macOS 10.14 (Mojave).

May 10, 2022

The ChimeraX 1.4 release candidate is available. Please try it and report any issues. See the change log for what's new. ChimeraX 1.4 is the last release to support macOS 10.14 (Mojave).

December 20, 2021

The RBVI wishes you a safe and happy holiday season! See our 2021 card and the gallery of previous cards back to 1985.

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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 ChimeraX commercial licensing.

ChimeraX is developed with support from National Institutes of Health R01-GM129325, Chan Zuckerberg Initiative grant EOSS4-0000000439, and the Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases.

Feature Highlight

1g74 per-model clipping

Per-Model Clipping

Front/back (rotatable) clipping can be applied selectively to some models but not others. This is most often used to slice a molecular surface but not the corresponding atomic structure.

For example, the protein in PDB entry 1g74 has an oleic acid residue OLA in an interior pocket. The script in pmc.cxc shows the protein surface, activates front clipping for all models, and then turns it off for just the atomic model, as shown in the figure. The clipping plane can be translated and rotated interactively with the mouse .

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Example Image

HIV-1 protease B-factor coloring

B-factor Coloring

Atomic B-factor values are read from PDB and mmCIF input files and assigned as attributes that can be shown with coloring and used in atom specification. This example shows B-factor variation within a structure of the HIV-1 protease bound to an inhibitor (PDB 4hvp). For complete image setup, including positioning, color key, and label, see the command file bfactor.cxc.

Additional color key examples can be found in tutorials: Coloring by Electrostatic Potential, Coloring by Sequence Conservation

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