Improving performance of protein structure similarity searching by distributing computations in hierarchical multi-agent system

  • Authors:

  • Alina Momot;Bożena Małysiak-Mrozek;Stanisław Kozielski;Dariusz Mrozek;Łukasz Hera;Sylwia Górczyńska-Kosiorz;Michał Momot

  • Affiliations:

  • Institute of Informatics, Silesian University of Technology, Gliwice, Poland;Institute of Informatics, Silesian University of Technology, Gliwice, Poland;Institute of Informatics, Silesian University of Technology, Gliwice, Poland;Institute of Informatics, Silesian University of Technology, Gliwice, Poland;Institute of Informatics, Silesian University of Technology, Gliwice, Poland;Clinical Department of Nephrology, Diabetology and Internal Diseases, Medical University of Silesia, Katowice, Poland;Institute of Medical Technology and Equipment, Zabrze, Poland

  • Venue:
  • ICCCI'10 Proceedings of the Second international conference on Computational collective intelligence: technologies and applications - Volume PartI
  • Year:
  • 2010

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Abstract

Since protein structure similarity searching is very complex and time-consuming, one of the possible acceleration methods is parallelization by distributing the calculation on multiple computers. In the paper, we present a theoretical model of the hierarchical multi-agent system dedicated to the task of protein structure similarity searching. We also show results of several numerical experiments confirming a suitability of such distribution for the similarity searching performed for the Muconate Lactonizing Enzyme (PDB ID = 1MUC) from the Protein Data Bank (PDB) against the database containing almost thousand randomly chosen molecules.