Searching Protein 3-D Structures for Optimal Structure Alignment Using Intelligent Algorithms and Data Structures

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Provided by: Institute of Electrical & Electronic Engineers
Topic: Big Data
Format: PDF
In this paper, the authors present a novel algorithm for measuring protein similarity based on their 3-D structure (protein tertiary structure). The algorithm used a suffix tree for discovering common parts of main chains of all proteins appearing in the current research collaboratory for structural bioinformatics Protein Data Bank (PDB). By identifying these common parts, they build a vector model and use some classical Information Retrieval (IR) algorithms based on the vector model to measure the similarity between proteins - all to all protein similarity.
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