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Specific tRNAs promote mRNA decay by recruiting the CCR4-NOT complex to translating ribosomes. Zhu X, Cruz VE et al. Science. 2024 Nov 22;386(6724):eadq8587.

Structure of the human TIP60-C histone exchange and acetyltransferase complex. Li C, Smirnova E et al. Nature. 2024 Nov 21;635(8039):764-769.

Quantifying constraint in the human mitochondrial genome. Lake NJ, Ma K et al. Nature. 2024 Nov 14;635(8038):390-397.

Engineered odorant receptors illuminate the basis of odour discrimination. de March CA, Ma N et al. Nature. 2024 Nov 14;635(8038):499–508.

Diverse anti-defence systems are encoded in the leading region of plasmids. Samuel B, Mittelman K et al. Nature. 2024 Nov 7;635(8037):186-192.

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News

October 14, 2024

Planned downtime: The ChimeraX website, Toolshed, web services (Blast Protein, Modeller, ...) and cgl.ucsf.edu e-mail will be unavailable starting Monday, Oct 14 10 AM PDT, continuing throughout the week and potentially the weekend (Oct 14-20).

August 1, 2024

Planned downtime: The ChimeraX website, Toolshed, web services (Blast Protein, Modeller, ...) and cgl.ucsf.edu e-mail will be unavailable August 1, 3-6 pm PDT.

June 17-18, 2024

Planned downtime: The ChimeraX website, Toolshed, web services (Blast Protein, Modeller, ...) and cgl.ucsf.edu e-mail will be unavailable June 17-18 PDT.

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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

Elp2 fit into map of Elongator subcomplex

Fitting to Density Maps

Atomic structures and/or maps can be fit rigidly into other maps with the Map icon , the Fit in Map tool, or the fitmap command. A common use is to locally optimize the fit after initial placement by hand. The command includes options for symmetrical and sequential fitting, as well as global search to generate multiple starting points for local optimization.

Elongator is a highly conserved complex that associates with RNA polymerase II during transcriptional elongation. In the image, one of its six subunits, Elp2 (PDB 5m2n), has been fit into a map of the Elp123 subcomplex (EMDB 4151).

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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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