Title: Protein fold recognition model based on cubic lattice

Authors: Farzad Peyravi; Alimohammad Latif; Seyed Mohammad Moshtaghioun

Addresses: Department of Computer Engineering, Yazd University, Yazd, Iran ' Department of Computer Engineering, Yazd University, Yazd, Iran ' Department of Biology, Yazd University, Yazd, Iran

Abstract: Proteins are essential for the biological processes in the human body. They can only perform their functions when they fold into their tertiary structure. We propose a novel fold recognition method for protein tertiary structure prediction based on a hidden Markov model and 3D coordinates of amino acid residues in 3D space. The method introduces states based on the basis vectors in Bravais cubic lattice to recognise the fold of proteins. The accuracy of proposed model is quite better in comparison with SAM, 3-HMM optimised and Markov chain in overall experiment.

Keywords: protein structure prediction; tertiary structure; fold recognition; hidden Markov model; Bravais lattice; cubic lattice.

DOI: 10.1504/IJDMB.2019.099290

International Journal of Data Mining and Bioinformatics, 2019 Vol.22 No.1, pp.75 - 90

Received: 27 Feb 2018
Accepted: 10 Feb 2019

Published online: 24 Apr 2019 *

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