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

Coulombic Electrostatic Potential

Coulombic electrostatic potential (ESP) can be calculated and displayed with surface coloring using the command coulombic or the Molecule Display icon . No separate calculation or input ESP file is required. The image shows the first assembly defined for PDB 3eeb, the protease domain of a toxin from Vibrio cholerae, with the default Coulombic coloring: red-white-blue over the value range –10 to 10. For image setup other than orientation, see the command file coulombic.cxc.

For how to add a color key and associated label, see the Protein-Ligand Binding Sites tutorial.

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Example Image

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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