Clustering of protein substructures for discovery of a novel class of sequence-structure fragments

Authors:
Ivana Rudolfova;Jaroslav Zendulka;Matej Lexa
Affiliations:
Brno University of Technology, Faculty of Information Technology, Brno, Czech Republic;Brno University of Technology, Faculty of Information Technology, Brno, Czech Republic;Brno University of Technology, Faculty of Information Technology, Brno, Czech Republic
Venue:
ITBAM'10 Proceedings of the First international conference on Information technology in bio- and medical informatics
Year:
2010

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Data mining: concepts and techniques

Data mining: concepts and techniques
Protein structure abstractionand automatic clustering using secondary structure element sequences

ICCSA'05 Proceedings of the 2005 international conference on Computational Science and Its Applications - Volume Part II

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Abstract

In this paper, we propose a novel method for clustering of protein substructures that we developed to study the relationships between protein sequences and their corresponding structures. We show the results of the comparison to other commonly used methods for clustering of protein structures. Finally, we outline a procedure for finding sequence profiles that tend to occur in more than one structural conformation but the number of their structural conformations is limited. This procedure is based on our method for protein substructure clustering.