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  • Amino acids pattern-biased spiral search for protein structure prediction

    Author(s)
    Rashid, Mahmood A
    Polash, Md Masbaul Alam
    Newton, MA Hakim
    Hoque, Md Tamjidul
    Sattar, Abdul
    Griffith University Author(s)
    Sattar, Abdul
    Rashid, Mahmood A.
    Year published
    2014
    Metadata
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    Abstract
    Proteins are essentially sequences of amino acids. They adopt specific folded 3-dimensional structures to perform specific tasks. The formation of 3-dimensional structures is largely guided by the constituent amino acids. Therefore, the positional presence of amino acids in a sequence might play important roles during the protein folding process. In this paper, we present a new heuristic derived from the positional patterns of amino acids in a sequence. With the help of a biased tabu tenure, we apply this heuristic within a spiral search algorithm. The spiral search is an efficient algorithm to develop hydrophobic core in a ...
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    Proteins are essentially sequences of amino acids. They adopt specific folded 3-dimensional structures to perform specific tasks. The formation of 3-dimensional structures is largely guided by the constituent amino acids. Therefore, the positional presence of amino acids in a sequence might play important roles during the protein folding process. In this paper, we present a new heuristic derived from the positional patterns of amino acids in a sequence. With the help of a biased tabu tenure, we apply this heuristic within a spiral search algorithm. The spiral search is an efficient algorithm to develop hydrophobic core in a protein structure pulling hydrophobic amino acids towards the core centre in a spiral fashion. On a set of standard benchmark proteins, we experimentally show that applying our new heuristic improves the performance of a spiral search algorithm consistently.
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    Conference Title
    PRICAI 2014: TRENDS IN ARTIFICIAL INTELLIGENCE
    Volume
    8862
    Publisher URI
    http://www.pricai2014.org/
    DOI
    https://doi.org/10.1007/978-3-319-13560-1_12
    Subject
    Artificial intelligence not elsewhere classified
    Information and computing sciences
    Publication URI
    http://hdl.handle.net/10072/67848
    Collection
    • Conference outputs

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