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Cryo-EM structure of the B cell co-receptor CD19 bound to the tetraspanin CD81. Susa KJ, Rawson S et al. Science. 2021 Jan 15;371(6526):300-305.

Tubulin glycylation controls axonemal dynein activity, flagellar beat, and male fertility. Gadadhar S, Alvarez Viar G et al. Science. 2021 Jan 8;371(6525):eabd4914.

Bi-paratopic and multivalent VH domains block ACE2 binding and neutralize SARS-CoV-2. Bracken CJ, Lim SA et al. Nat Chem Biol. 2021 Jan;17(1):113-121.

SARS-CoV-2 neutralizing antibody structures inform therapeutic strategies. Barnes CO, Jette CA et al. Nature. 2020 Dec 24;588(7839):682-687.

Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. Fäßler F, Dimchev G et al. Nat Commun. 2020 Dec 22;11(1):6437.

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December 18, 2020

Chimera production release 1.15 is now available. See the release notes for what's new.

December 11, 2020

The RBVI wishes you a safe and happy holiday season! See our 2020 card and the gallery of previous cards back to 1985.

November 4, 2020

A 1.15 production release candidate is available, including a fix to work with the new PDB fetch locations (see the release notes). Please try it and report any problems.

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UCSF Chimera is a program for the interactive visualization and analysis of molecular structures and related data, including density maps, trajectories, and sequence alignments. High-quality images and animations can be generated. Chimera includes complete documentation and is free of charge for academic, government, nonprofit, and personal use. Commercial users, please see Chimera commercial licensing.

Chimera development was supported by the National Institutes of Health (P41-GM103311).

UCSF ChimeraX is the next-generation molecular visualization program from the RBVI, following UCSF Chimera. We encourage Chimera users to try ChimeraX for much better performance with large structures, as well as other major advantages. ChimeraX replaces a significant subset of Chimera features, includes several completely new features, and is under active development. Users may certainly choose to use both programs, and it is fine to have both installed.

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

Orexin Receptor Complex

The image shows the structure of the human OX2 orexin receptor bound to the insomnia drug suvorexant, Protein Data Bank entry 4s0v. The drug is shown as spheres colored by element, and the receptor as ribbons with secondary structure elements rainbow-colored from blue at the N-terminus to red at the C-terminus. (More samples...)


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