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Critical Assessment of Protein Intrinsic Disorder Prediction

Authors: Necci, Marco; Piovesan, Damiano; Tosatto, Silvio; Hoque, Md Tamjidul; Walsh, Ian; Iqbal, Sumaiya; Vendruscolo, Michele; +91 Authors

Critical Assessment of Protein Intrinsic Disorder Prediction

Abstract

AbstractIntrinsically disordered proteins defying the traditional protein structure-function paradigm represent a challenge to study experimentally. As a large part of our knowledge rests on computational predictions, it is crucial for their accuracy to be high. The Critical Assessment of protein Intrinsic Disorder prediction (CAID) experiment was established as a community-based blind test to determine the state of the art in predicting intrinsically disordered regions in proteins and the subset of disordered residues involved in binding other molecules. A total of 43 methods, 32 for disorder and 11 for binding regions, were evaluated on a dataset of 646 novel manually curated proteins from DisProt. The best methods use deep learning techniques and significantly outperform widely used earlier physicochemical methods across different types of targets. Disordered binding regions remain hard to predict correctly. Depending on the definition used, the top disorder predictor has an FMaxof 0.483 (DisProt) or 0.792 (DisProt-PDB). As the top binding predictor only attains an FMaxof 0.231, this suggests significant potential for improvement. Intriguingly, computing times among the top performing methods vary by up to four orders of magnitude.

Keywords

Protein Folding, Biomedical and clinical sciences, disorder prediction, Protein Conformation, /631/45/612, analysis, 610, [INFO] Computer Science [cs], https://purl.org/becyt/ford/1.7, Computational platforms and environments, /631/114/2398, 616, Machine learning, /631/114/2411, Amino Acid Sequence, https://purl.org/becyt/ford/1, Databases, Protein, Intrinsically disordered proteins, Proteins, Computational Biology, disorder, /631/114/1305, [SDV] Life Sciences [q-bio], Intrinsically Disordered Proteins, Biological sciences, CAID, Protein structure predictions, /631/114/794, Software, Analysis, Protein Binding

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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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