SCOPExplorer: A Tool for Browsing and Analyzing Structural Classification of Proteins (SCOP) Data

We have developed a tool, named “SCOPExplorer”, for browsing and analyzing SCOP information. SCOPEx-plorer 1) contains a tree-style viewer to display an overview of protein structure data, 2) is able to employ a variety of options to analyze SCOP data statistically, and 3) provides a function to lin...

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Bibliographic Details
Published in:Molecules and cells 2004, 17(2), , pp.360-364
Main Authors: In-Seob Han, Geon-Tae Ahn, Jin-Hong Kim, Eui-Yoon Hwang, Myung-Joon Lee
Format: Article
Language:Korean
Subjects:
생물학
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Summary:We have developed a tool, named “SCOPExplorer”, for browsing and analyzing SCOP information. SCOPEx-plorer 1) contains a tree-style viewer to display an overview of protein structure data, 2) is able to employ a variety of options to analyze SCOP data statistically, and 3) provides a function to link protein domains to protein data bank (PDB) resources. SCOPExplorer uses an XML-based structural document format, named “SCOPML”, derived from the SCOP data. To evaluate SCOPExplorer, proteins containing more than 20 domains were analyzed. The Skp1-Skp2 pro-tein complex and the Fab fragment of IgG2 contain the largest numbers of domains in the current eu-karyotic SCOP database. These proteins are known to either bind to various proteins or generate diversity. This suggests that the more domains a protein has, the more interactions or more variability it will be capable of. (SCOPExplorer is available for download at http://scopexplorer.ulsan.ac.kr). KCI Citation Count: 2
ISSN:1016-8478
0219-1032