UCSF Chimera: Tools for Integrated Sequence-Structure Analysis
Author Information
Author(s): Meng Elaine C, Pettersen Eric F, Couch Gregory S, Huang Conrad C, Ferrin Thomas E
Primary Institution: University of California San Francisco
Hypothesis
There is a need for interactive visualization tools that integrate sequence and structure analysis in protein research.
Conclusion
UCSF Chimera provides tools that enhance the comparison and analysis of protein structures and their sequences.
Supporting Evidence
- Chimera includes tools for integrating protein sequence and structure information.
- The Multalign Viewer tool displays sequence alignments with customizable layout and coloring.
- Structures opened in Chimera are automatically associated with sequences in the alignment.
- MatchMaker constructs new alignments and matches structures based on sequence data.
- Match -> Align creates sequence alignments from superimposed protein structures.
Takeaway
UCSF Chimera helps scientists look at protein sequences and structures together, making it easier to understand how they work.
Methodology
The tools described are implemented as extensions to UCSF Chimera and are written in Python, allowing for interactive analyses of sequences and structures.
Limitations
Editing capabilities in Multalign Viewer are limited, and there is no interaction with phylogenetic information.
Digital Object Identifier (DOI)
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