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  • OPAL: prediction of MoRF regions in intrinsically disordered protein sequences

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    Accepted Manuscript (AM)
    Author(s)
    Sharma, Ronesh
    Raicar, Gaurav
    Tsunoda, Tatsuhiko
    Patil, Ashwini
    Sharma, Alok
    Griffith University Author(s)
    Sharma, Alok
    Year published
    2018
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    Abstract
    Motivation: Intrinsically disordered proteins lack stable 3-dimensional structure and play a crucial role in performing various biological functions. Key to their biological function are the molecular recognition features (MoRFs) located within long disordered regions. Computationally identifying these MoRFs from disordered protein sequences is a challenging task. In this study, we present a new MoRF predictor, OPAL, to identify MoRFs in disordered protein sequences. OPAL utilizes two independent sources of information computed using different component predictors. The scores are processed and combined using common averaging ...
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    Motivation: Intrinsically disordered proteins lack stable 3-dimensional structure and play a crucial role in performing various biological functions. Key to their biological function are the molecular recognition features (MoRFs) located within long disordered regions. Computationally identifying these MoRFs from disordered protein sequences is a challenging task. In this study, we present a new MoRF predictor, OPAL, to identify MoRFs in disordered protein sequences. OPAL utilizes two independent sources of information computed using different component predictors. The scores are processed and combined using common averaging method. The first score is computed using a component MoRF predictor which utilizes composition and sequence similarity of MoRF and non-MoRF regions to detect MoRFs. The second score is calculated using half-sphere exposure (HSE), solvent accessible surface area (ASA) and backbone angle information of the disordered protein sequence, using information from the amino acid properties of flanks surrounding the MoRFs to distinguish MoRF and non-MoRF residues. Results: OPAL is evaluated using test sets that were previously used to evaluate MoRF predictors, MoRFpred, MoRFchibi and MoRFchibi-web. The results demonstrate that OPAL outperforms all the available MoRF predictors and is the most accurate predictor available for MoRF prediction. It is available at http://www.alok-ai-lab.com/tools/opal/.
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    Journal Title
    Bioinformatics
    Volume
    34
    Issue
    11
    DOI
    https://doi.org/10.1093/bioinformatics/bty032
    Copyright Statement
    © 2018 Oxford University Press. This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Bioinformatics following peer review. The definitive publisher-authenticated version OPAL: prediction of MoRF regions in intrinsically disordered protein sequences, Bioinformatics, Volume 34, Issue 11, 1 June 2018, Pages 1850–1858 is available online at: https://doi.org/10.1093/bioinformatics/bty032
    Subject
    Mathematical sciences
    Biological sciences
    Other biological sciences not elsewhere classified
    Publication URI
    http://hdl.handle.net/10072/379824
    Collection
    • Journal articles

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