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      UCSF Chimera?A visualization system for exploratory research and analysis

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          Abstract

          The design, implementation, and capabilities of an extensible visualization system, UCSF Chimera, are discussed. Chimera is segmented into a core that provides basic services and visualization, and extensions that provide most higher level functionality. This architecture ensures that the extension mechanism satisfies the demands of outside developers who wish to incorporate new features. Two unusual extensions are presented: Multiscale, which adds the ability to visualize large-scale molecular assemblies such as viral coats, and Collaboratory, which allows researchers to share a Chimera session interactively despite being at separate locales. Other extensions include Multalign Viewer, for showing multiple sequence alignments and associated structures; ViewDock, for screening docked ligand orientations; Movie, for replaying molecular dynamics trajectories; and Volume Viewer, for display and analysis of volumetric data. A discussion of the usage of Chimera in real-world situations is given, along with anticipated future directions. Chimera includes full user documentation, is free to academic and nonprofit users, and is available for Microsoft Windows, Linux, Apple Mac OS X, SGI IRIX, and HP Tru64 Unix from http://www.cgl.ucsf.edu/chimera/. Copyright 2004 Wiley Periodicals, Inc.

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          Author and article information

          Journal
          Journal of Computational Chemistry
          J. Comput. Chem.
          Wiley
          0192-8651
          1096-987X
          October 2004
          October 2004
          2004
          : 25
          : 13
          : 1605-1612
          Article
          10.1002/jcc.20084
          15264254
          56d13bfa-6a05-4bae-9e70-d2ad13610681
          © 2004

          http://doi.wiley.com/10.1002/tdm_license_1.1

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