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Featured Citations

Structure and conformational dynamics of the human spliceosomal Bact complex. Haselbach D, Komarov I et al. Cell. 2018 Jan 25;172(3):454-464.e11.

UCSF ChimeraX: Meeting modern challenges in visualization and analysis. Goddard TD, Huang CC et al. Protein Sci. 2018 Jan;27(1):14-25.

Automating tasks in protein structure determination with the clipper python module. McNicholas S, Croll T et al. Protein Sci. 2018 Jan;27(1):207-216.

Molecular structure of human KATP in complex with ATP and ADP. Lee KPK, Chen J, MacKinnon R. eLife. 2017 Dec 29;6. pii: e32481.

Tectonic conformational changes of a coronavirus spike glycoprotein promote membrane fusion. Walls AC, Tortorici MA et al. Proc Natl Acad Sci USA. 2017 Oct 17;114(42):11157-11162.

See also: RCSB PDB Images
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January 1, 2018

UCSF ChimeraX paper published in a special issue of Protein Science: Tools for Protein Science.

December 22, 2017

ChimeraX version 0.5 is available. See the change log for what's new.

November 9, 2017

A fourth alpha release is available. See the change log for salient changes and when they occurred.

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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 development is funded by the National Institutes of Health (NIGMS P41-GM103311).

Feature Highlight

AMPA receptor with tube helices

Curved Helix Cylinders

Protein α-helices can be shown as curved-cylinder “tubes“ with the cartoon style command. Helix tube mode is an alternative to the standard spiraling ribbons, and both modes are fully integrated with coil and β-strand cartoons. The structure at left is an AMPA-subtype glutamate receptor bound to the antiepileptic drug perampanel (PDB 5l1f). The receptor is tetrameric, and each chain is rainbow color-coded from blue at the N-terminus to red at the C-terminus. Four molecules of perampanel (pink) are bound near the bottom, between the transmembrane domain and the rest of the receptor. For image setup other than orientation, see the command file ampar.cxc.

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Example Image

transducin switch regions

G-Protein Switch Regions

The GDP- and GTP-bound conformations of the transducin α-subunit (1tag and 1tnd, respectively) differ primarily in three regions, termed switch 1, switch 2, and switch 3. The structures have been superimposed with matchmaker and shown as cartoons, with “empty” outlines where the structures are almost the same (for simplicity, only one conformation's outlines are shown). The GTP analog GTPγS is displayed as spheres color-coded by heteroatom. For 2D labels and image setup other than structure orientation, see the command file switch.cxc.

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