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Recent Citations

Xlink Analyzer: Software for analysis and visualization of cross-linking data in the context of three-dimensional structures. Kosinski J, von Appen A et al. J Struct Biol. 2015 Mar;189(3):177-83.

Mechanistic insights into the recycling machine of the SNARE complex. Zhao M, Wu S et al. Nature. 2015 Feb 2;518(7537):61-7.

Three-dimensional topology of the SMC2/SMC4 subcomplex from chicken condensin I revealed by cross-linking and molecular modelling. Barysz H, Kim JH et al. Open Biol. 2015 Feb;5(2).

Ring closure activates yeast γTuRC for species-specific microtubule nucleation. Kollman JM, Greenberg CH et al. Nat Struct Mol Biol. 2015 Feb;22(2):132-137.

De novo design of an RNA tile that self-assembles into a homo-octameric nanoprism. Yu J, Liu Z et al. Nat Commun. 2015 Jan 30;6:5724.

(Previously featured citations...)

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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

realignment dialog

Multiple Sequence Alignment

Multiple sequence alignment of structure chains in Chimera or realignment of the sequences in an existing alignment can be performed using web services hosted by the UCSF RBVI. The following programs are provided:

The result is automatically shown in Multalign Viewer. (Sequences can also be added to an alignment one by one without a web service, but true multiple sequence alignment is often advantageous.)

Gallery Sample

Loop Interactions

The image shows interactions of the delta-1 loop with the rest of hepatitis C virus RNA-dependent RNA polymerase (Protein Data Bank entry 1quv). Loop residues in contact with the rest of the structure (van der Waals overlap ≥ 0.01 Å) are displayed as sticks; interacting surface atoms are shown as red patches. (More samples...)