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Recent Citations

Architecture and self-assembly of the jumbo bacteriophage nuclear shell. Laughlin TG, Deep A et al. Nature. 2022 Aug 11;608(7922):429-435.

Implementation of occupied and virtual Edmiston-Ruedenberg orbitals using Cholesky decomposed integrals. Folkestad SD, Matveeva R et al. J Chem Theory Comput. 2022 Aug 9;18(8):4733-4744.

Integrative genome modeling platform reveals essentiality of rare contact events in 3D genome organizations. Boninsegna L, Yildirim A et al. Nat Methods. 2022 Aug;19(8):938-949.

Membrane-anchored HDCR nanowires drive hydrogen-powered CO2 fixation. Dietrich HM, Righetto RD et al. Nature. 2022 Jul 28;607(7920):823-830.

Fusion protein strategies for cryo-EM study of G protein-coupled receptors. Zhang K, Wu H et al. Nat Commun. 2022 Jul 28;13(1):4366.

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News

December 20, 2021

The RBVI wishes you a safe and happy holiday season! See our 2021 card and the gallery of previous cards back to 1985.

December 17, 2021

Chimera production release 1.16 is now available. This will be the last release to support Windows 7. See the release notes for what's new.

December 18, 2020

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

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Upcoming Events

UCSF Chimera is a program for the interactive visualization and analysis of molecular structures and related data, including density maps, trajectories, and sequence alignments. It is available free of charge for noncommercial use. Commercial users, please see Chimera commercial licensing.

We encourage Chimera users to try ChimeraX for much better performance with large structures, as well as other major advantages and completely new features. ChimeraX includes a significant subset of Chimera features (with more to come, see the missing features list) and is under active development. Users may choose to use both programs, and it is fine to have both installed.

Chimera is no longer under active development, and is only updated for critical maintenance. Chimera development was supported by a grant from the National Institutes of Health (P41-GM103311) that ended in 2018.

Feature Highlight

User-Driven Analysis

User-Driven Analysis

Users can easily import structure-related data into Chimera in the form of attributes, or values associated with atoms, residues, or models. The data can be imported with Define Attribute and then represented visually with color ranges, atomic radii, or "worm" thickness. Such data can also be manipulated programmatically in Chimera, and in fact Chimera was designed with extensibility and programmability in mind. It is largely implemented in Python, with certain features coded in C++ for efficiency. Python is an easy-to-learn interpreted language with object-oriented features. All of Chimera's functionality is accessible through Python and users can implement their own algorithms and extensions without any Chimera code changes, so any such custom extensions will continue to work across Chimera releases. Many programming examples are provided to assist extension writers.

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Gallery Sample

RNA Bases

Large ribosomal RNA is shown with individual bases depicted using solvent excluded molecular surfaces. Bases A, C, G, U are colored red, yellow, green, and blue. The surfaces were made with the Chimera multiscale tool in combination with the nucleic acid blobs plug-in. The image was raytraced using POVray.

Protein Data Bank model 1s72.

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