[HTML][HTML] MemDis: predicting disordered regions in transmembrane proteins

L Dobson, GE Tusnády - International Journal of Molecular Sciences, 2021 - mdpi.com
Transmembrane proteins (TMPs) play important roles in cells, ranging from transport
processes and cell adhesion to communication. Many of these functions are mediated by …

[HTML][HTML] In silico structural analysis exploring conformational folding of protein variants in Alzheimer's disease

E Efraimidis, MG Krokidis, TP Exarchos… - International Journal of …, 2023 - mdpi.com
Accurate protein structure prediction using computational methods remains a challenge in
molecular biology. Recent advances in AI-powered algorithms provide a transformative …

ADOPT: intrinsic protein disorder prediction through deep bidirectional transformers

I Redl, C Fisicaro, O Dutton, F Hoffmann… - NAR Genomics and …, 2023 - academic.oup.com
Intrinsically disordered proteins (IDPs) are important for a broad range of biological functions
and are involved in many diseases. An understanding of intrinsic disorder is key to develop …

Metapredict V2: An update to metapredict, a fast, accurate, and easy-to-use predictor of consensus disorder and structure

RJ Emenecker, D Griffith, AS Holehouse - BioRxiv, 2022 - biorxiv.org
Intrinsically disordered proteins and protein regions make up 20-40% of most eukaryotic
proteomes where they play essential roles in a wide gamut of cellular processes, from …

[HTML][HTML] Flanking regions, amyloid cores, and polymorphism: the potential interplay underlying structural diversity

AA Bhopatkar, R Kayed - Journal of Biological Chemistry, 2023 - ASBMB
The β-sheet–rich amyloid core is the defining feature of protein aggregates associated with
neurodegenerative disorders. Recent investigations have revealed that there exist multiple …

[HTML][HTML] Ibuprofen favors binding of amyloid-β peptide to its depot, serum albumin

EA Litus, AS Kazakov, EI Deryusheva… - International Journal of …, 2022 - mdpi.com
The deposition of amyloid-β peptide (Aβ) in the brain is a critical event in the progression of
Alzheimer's disease (AD). This Aβ deposition could be prevented by directed enhancement …

[HTML][HTML] Structural intrinsic disorder in a functionalized potyviral coat protein as a main viability determinant of its assembled nanoparticles

M Mínguez-Toral, LF Pacios, F Sánchez… - International Journal of …, 2023 - Elsevier
The viability of viral-derived nanoparticles (virions and VLPs) aimed to nanobiotechnological
functionalizations of the coat protein (CP) of turnip mosaic virus has been studied by means …

[HTML][HTML] Comparative evaluation of AlphaFold2 and disorder predictors for prediction of intrinsic disorder, disorder content and fully disordered proteins

B Zhao, S Ghadermarzi, L Kurgan - Computational and Structural …, 2023 - Elsevier
We expand studies of AlphaFold2 (AF2) in the context of intrinsic disorder prediction by
comparing it against a broad selection of 20 accurate, popular and recently released …

HybridRNAbind: prediction of RNA interacting residues across structure-annotated and disorder-annotated proteins

F Zhang, M Li, J Zhang, L Kurgan - Nucleic Acids Research, 2023 - academic.oup.com
The sequence-based predictors of RNA-binding residues (RBRs) are trained on either
structure-annotated or disorder-annotated binding regions. A recent study of predictors of …

Accurate and Fast Prediction of Intrinsically Disordered Protein by Multiple Protein Language Models and Ensemble Learning

S Xu, A Onoda - Journal of Chemical Information and Modeling, 2023 - ACS Publications
Intrinsically disordered proteins (IDPs) play a vital role in various biological processes and
have attracted increasing attention in the past few decades. Predicting IDPs from the primary …