How Disordered is My Protein and What is Its Disorder For? A Guide Through the "dark Side" of the Protein Universe
Overview
Authors
Affiliations
In the last 2 decades it has become increasingly evident that a large number of proteins are either fully or partially disordered. Intrinsically disordered proteins lack a stable 3D structure, are ubiquitous and fulfill essential biological functions. Their conformational heterogeneity is encoded in their amino acid sequences, thereby allowing intrinsically disordered proteins or regions to be recognized based on properties of these sequences. The identification of disordered regions facilitates the functional annotation of proteins and is instrumental for delineating boundaries of protein domains amenable to structural determination with X-ray crystallization. This article discusses a comprehensive selection of databases and methods currently employed to disseminate experimental and putative annotations of disorder, predict disorder and identify regions involved in induced folding. It also provides a set of detailed instructions that should be followed to perform computational analysis of disorder.
Twenty years of advances in prediction of nucleic acid-binding residues in protein sequences.
Basu S, Yu J, Kihara D, Kurgan L Brief Bioinform. 2025; 26(1).
PMID: 39833102 PMC: 11745544. DOI: 10.1093/bib/bbaf016.
Evaluation of predictions of disordered binding regions in the CAID2 experiment.
Zhang F, Kurgan L Comput Struct Biotechnol J. 2025; 27():78-88.
PMID: 39811792 PMC: 11732247. DOI: 10.1016/j.csbj.2024.12.009.
Prediction of Disordered Linkers Using APOD.
Peng Z, Wu H, Luo Y, Kurgan L Methods Mol Biol. 2024; 2867:219-231.
PMID: 39576584 DOI: 10.1007/978-1-0716-4196-5_13.
Accurate and Fast Prediction of Intrinsic Disorder Using flDPnn.
Wang K, Hu G, Wu Z, Kurgan L Methods Mol Biol. 2024; 2867:201-218.
PMID: 39576583 DOI: 10.1007/978-1-0716-4196-5_12.
DescribePROT Database of Residue-Level Protein Structure and Function Annotations.
Zhao B, Basu S, Kurgan L Methods Mol Biol. 2024; 2867:169-184.
PMID: 39576581 DOI: 10.1007/978-1-0716-4196-5_10.