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Stefan Suhrer (University of Salzburg, Salzburg, Austria)
COPS (Classification Of Protein Structures) is a next-generation web application that provides fast and intuitive access to the entire set of currently available protein structures. Pairwise structural similarities in COPS are encoded as quantified metric relationships that are mapped to a hierarchical tree which is largely equivalent to the structure of a file browser. We take advantage of this analogy in the so called Fold Space Navigator to provide access to the domains in the classification. With this desktop look-and-feel the exploration of the structural neighborhood of a given protein structure is as easy as browsing through a local file system. Moreover, the Fold Space Navigator contains several tools to export and sort the data, for similarity searches, and for protein visualization. COPS is implemented in a free open source framework called Flex (Adobe Systems Inc.) which was initially thought for the development of rich internet applications (RIA) with an emphasis on the presentation of large data sets. In COPS, the framework is used for the first time in structural biology, in particular, for the visualization of the enormous body of information contained