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Recent Citations

RRDistMaps: a UCSF Chimera tool for viewing and comparing protein distance maps. Chen JE, Huang CC, Ferrin TE. Bioinformatics. 2015 May 1;31(9):1484-6.

Cryo-EM structure of SNAP-SNARE assembly in 20S particle. Zhou Q, Huang X et al. Cell Res. 2015 May;25(5):551-60.

Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states. Ge P, Scholl D et al. Nat Struct Mol Biol. 2015 May;22(5):377-82.

Structures of the CRISPR-Cmr complex reveal mode of RNA target positioning. Taylor DW, Zhu Y et al. Science. 2015 May 1;348(6234):581-5.

Domain atrophy creates rare cases of functional partial protein domains. Prakash A, Bateman A. Genome Biol. 2015 Apr 30;16(1):88.

(Previously featured citations...)

Chimera Search

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News

January 9, 2015

Chimera production release 1.10.1 is now available. 64-bit builds are recommended for all capable platforms, and the 1.10 series will be the last to support OS X 10.6 and 10.7. See the release notes for details.

November 5, 2014

Chimera production release 1.10 is now available. 64-bit builds are recommended for all capable platforms, and v1.10 will be the last to support OS X 10.6 and 10.7. See the release notes for what's new.

October 23, 2014

A production release candidate (v1.10) is available; please try it and report any problems. 64-bit builds are now recommended for all capable platforms, and v1.10 will be the last to support OS X 10.6 and 10.7. See the release notes for what's new.

(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, non-profit, and personal use. Chimera is developed by the Resource for Biocomputing, Visualization, and Informatics, funded by the National Institutes of Health (NIGMS P41-GM103311).

Feature Highlight

sequence 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

Wasabi Receptor

The image shows the structure of the human TRPA1 ion channel (wasabi receptor) determined by electron cryo-microscopy, Protein Data Bank entry 3j9p. The four subunits of the tetramer are shown as ribbons in different colors over a dark-to-light gradient background. (More samples...)