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Title: A computer system to perform structure comparison using TOPS representations of protein structure
Authors: Gilbert, D
Westhead, V
Viksna, J
Thornton, J
Issue Date: 2001
Publisher: Elsevier
Citation: Journal of Computers and Chemistry. 26 (1) 23-30
Abstract: We describe the design and implementation of a fast topology–based method for protein structure comparison. The approach uses the TOPS topological representation of protein structure, aligning two structures using a common discovered pattern and generating measure of distance derived from an insert score. Heavy use is made of a constraint-based pattern matching algorithm for TOPS diagrams that we have designed and described elsewhere Gilbert et al. (1999). The comparison system is maintained at the European Bioinformatics Institute and is available over the Web via the at Users submit a structure description in Protein Data Bank (PDB) format and can compare it with structures in the entire PDB or a representative subset of protein domains, receiving the results by email.
Appears in Collections:Computer Science
Dept of Computer Science Research Papers

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