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Recent Citations

Cryo-EM structure of the mammalian ATP synthase tetramer bound with inhibitory protein IF1. Gu J, Zhang L et al. Science. 2019 Jun 14;364(6445):1068-1075.

Multifunctional graphene supports for electron cryomicroscopy. Naydenova K, Peet MJ, Russo CJ. Proc Natl Acad Sci USA. 2019 Jun 11;116(24):11718-11724.

Genetic diversity of CHC22 clathrin impacts its function in glucose metabolism. Fumagalli M, Camus SM et al. eLife. 2019 Jun 4;8. pii: e41517.

Structural basis for the clamping and Ca2+ activation of SNARE-mediated fusion by synaptotagmin. Grushin K, Wang J et al. Nat Commun. 2019 Jun 3;10(1):2413.

Breaking the law: unconventional strategies for antibody diversification. Kanyavuz A, Marey-Jarossay A et al. Nat Rev Immunol. 2019 Jun;19(6):355-368.

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News

November 17, 2018

Chimera production release 1.13.1 is now available; see the release notes for what's new. The Mac version requires OS 10.10 or later.

October 22, 2018

Mac users: the 1.13.1 release candidate and recent daily builds contain a fix for Mojave (OS 10.14). These versions require OS 10.10 or later.

September 21, 2018

Mac users are advised to hold off upgrading to Mojave until we find a fix for Chimera buttons not being shown until the windows containing them are resized.

(Previous news...)

Upcoming Events

UCSF Chimera is a highly extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. High-quality images and animations can be generated. Chimera includes complete documentation and several tutorials, and can be downloaded free of charge for academic, government, nonprofit, and personal use. Chimera is developed by the Resource for Biocomputing, Visualization, and Informatics (RBVI), supported in part by the National Institutes of Health (P41-GM103311).

UCSF ChimeraX (or simply ChimeraX) is the next-generation molecular visualization program from the RBVI, following UCSF Chimera.

Feature Highlight

sequence alignment structure

Sequence Viewer

The Multalign Viewer tool displays individual sequences and multiple sequence alignments. Sequence alignments can be read from external files (several formats) or created by other tools in Chimera. Structures opened in Chimera are automatically associated with sufficiently similar sequences in the alignment. After association,

  • mousing over a residue in the sequence shows its structure residue number
  • selecting in the sequence selects residues in the structure(s) and vice versa
  • structures can be superimposed using the sequence alignment
Various measures of sequence conservation and structural variation (RMSD) can be computed and shown above the sequences as histograms, and on the structures with color or worm radius. Secondary structure elements can be depicted as colored boxes or regions on the alignment. Regions can also be created by hand.

(More features...)

Gallery Sample

G Protein Interface Surface

Heterotrimeric G protein (Protein Data Bank entry 1gg2) with the alpha subunit shown in green, the beta subunit in light blue, and the gamma subunit in brown. The Intersurf tool was used to show the interface between the alpha and beta subunits. The interface surface is colored to show the distance between atoms across the interface (red for closer together, blue for farther apart). (More samples...)


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