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Cryo-EM structure of a transcribing cypovirus. Yang C, Ji G et al. Proc Natl Acad Sci USA. 2012 Apr 17;109(16):6118-23.

Structural insights into initial and intermediate steps of the ribosome-recycling process. Yokoyama T, Shaikh TR et al. EMBO J. 2012 Apr 4;31(7):1836-46.

Fabs enable single particle cryoEM studies of small proteins. Wu S, Avila-Sakar A et al. Structure. 2012 Apr 4;20(4):582-92.

The molecular architecture of human Dicer. Lau PW, Guiley KZ et al. Nat Struct Mol Biol. 2012 Apr;19(4):436-40.

Topological analysis and interactive visualization of biological networks and protein structures. Doncheva NT, Assenov Y et al. Nat Protoc. 2012 Apr;7(4):670-85.

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Chimera Search

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News

March 13, 2012

Chimera production release 1.6.1 is now available. The 1.6 release series will be the last to support Mac PowerPC platforms and OS X 10.5 (Leopard). See the release notes for new features since the 1.5 series and bugfixes since 1.6.

February 29, 2012

Chimera production release 1.6 is now available. This will be the last release supporting Mac PowerPC platforms and OS X 10.5 (Leopard). See the release notes for new features since the 1.5 release series.

January 26, 2012

A Chimera production release candidate (version 1.6) is available; please try it and report any problems. See the release notes for changes relative to previous versions.

(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 National Center for Research Resources (grant 2P41RR001081) and National Institute of General Medical Sciences (grant 9P41GM103311).

Feature Highlight

Annotations from UniProt

The PDB/UniProt Info tool retrieves sequence and structure annotations for Protein Data Bank (PDB) entries using a Web service provided by the RCSB PDB. Sequences are displayed in Multalign Viewer, and feature annotations from UniProt are mapped onto the sequences as regions or colored boxes. In the region browser (see the figure):

  • making a region Active selects any corresponding structure residues for further operations; only one region can be active at a time
  • making a region Shown displays it in the sequence window
  • the square color wells show (and allow changing) the region interior and border colors

(More features...)

Gallery Sample

Sliced Potassium Channel

Potassium channel (Protein Data Bank entry 1bl8) on a dark slate blue background with potassium ions shown in firebrick. The channel is comprised of four chains. Each chain has been rainbow-colored from blue at the N-terminus to red at the C-terminus, but only the surface of the channel is shown. The surface has been sliced with a per-model clipping plane. The surface cap color is plum except with opacity set to 0.8. The shininess and brightness have been set to 128 and 8, respectively, and the lights on the scene have been moved from their default positions. The subdivision quality (related to the smoothness of the spherical ions) is 5.0, and the molecular surface was computed with probe radius and vertex density set to 1.0 and 6.0, respectively. (More samples...)