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UCSF Chimera--a visualization system for exploratory research and analysis.

Eric F Pettersen¹, Thomas D Goddard, Conrad C Huang

¹Computer Graphics Laboratory, Department of Pharmaceutical Chemistry, University of California, 600 16th Street, San Francisco, California 94143-2240, USA.

Journal of Computational Chemistry

|July 21, 2004

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UCSF Chimera is an extensible visualization system for molecular structures. Its modular design and diverse extensions facilitate complex molecular assembly analysis and collaborative research.

Area of Science:

Computational biology
Structural biology
Bioinformatics

Background:

Molecular visualization software is crucial for understanding complex biological structures.
Existing tools may lack flexibility for specialized tasks or collaborative features.

Purpose of the Study:

To present the design, implementation, and capabilities of UCSF Chimera, an extensible molecular visualization system.
To highlight novel extensions for large-scale assemblies and interactive collaboration.

Main Methods:

UCSF Chimera employs a core architecture with extensible modules for enhanced functionality.
Key extensions discussed include Multiscale, Collaboratory, Multalign Viewer, ViewDock, Movie, and Volume Viewer.

Main Results:

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The system supports visualization of large-scale molecular assemblies (e.g., viral coats) and volumetric data.
Extensions enable interactive sharing of visualization sessions and analysis of molecular dynamics trajectories.
UCSF Chimera is available for multiple operating systems and is free for academic users.

Conclusions:

UCSF Chimera's extensible architecture effectively supports diverse and advanced molecular visualization needs.
The system facilitates collaborative research and detailed analysis of complex biological data.
Its broad availability and features make it a valuable tool for the scientific community.