Analyzing Protein Disorder with IUPred2A. Issue 1 (1st April 2020)

• Record Type: Journal Article
• Authors: Erdős, Gábor; Dosztányi, Zsuzsanna
• Editors: Baxevanis, Andreas D.; Petsko, Gregory A.; Stein, Lincoln D.; Stormo, Gary D.
• Is Part Of: Current protocols in bioinformatics. Volume 70:Issue 1(2020)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2020-04-01
• Subjects: binding sites -- bioinformatics -- context dependent disorder -- intrinsically disordered proteins -- redox regulation; Bioinformatics -- Laboratory manuals; Nucleotide sequence -- Laboratory manuals; Amino acid sequence -- Laboratory manuals; Base Sequence; Amino Acid Sequence; Computational Biology -- methods; Databases, Genetic; Proteins -- analysis; Sequence Analysis -- methods; Sequence Homology; Amino acid sequence; Bioinformatics; Nucleotide sequence; Laboratory Manuals; Laboratory manuals; 570.285
• DOI: 10.1002/cpbi.99
• Languages: English
• ISSNs: 1934-3396

Abstract

Abstract: IUPred2A is a combined prediction tool designed to discover intrinsically disordered or conditionally disordered proteins and protein regions. Intrinsically disordered regions exist without a well‐defined three‐dimensional structure in isolation but carry out important biological functions. Over the years, various prediction methods have been developed to characterize disordered regions. The existence of disordered segments can also be dependent on different factors such as binding partners or environmental traits like pH or redox potential, and recognizing such regions represents additional computational challenges. In this article, we present detailed instructions on how to use IUPred2A, one of the most widely used tools for the prediction of disordered regions/proteins or conditionally disordered segments, and provide examples of how the predictions can be interpreted in different contexts. © 2020 The Authors. Basic Protocol 1 : Analyzing disorder propensity with IUPred2A online Basic Protocol 2 : Analyzing disordered binding regions using ANCHOR2 Support Protocol 1 : Interpretation of the results Basic Protocol 3 : Analyzing redox‐sensitive disordered regions Support Protocol 2 : Download options Support Protocol 3 : REST API for programmatic purposes Basic Protocol 4 : Using IUPred2A locally