[HTML][HTML] Real-time structure search and structure classification for AlphaFold protein models

T Aderinwale, V Bharadwaj, C Christoffer… - Communications …, 2022 - nature.com
Last year saw a breakthrough in protein structure prediction, where the AlphaFold2 method
showed a substantial improvement in the modeling accuracy. Following the software release …

DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation

F Quaglia, B Mészáros, E Salladini, A Hatos… - Nucleic acids …, 2022 - academic.oup.com
Abstract The Database of Intrinsically Disordered Proteins (DisProt, URL: https://disprot. org)
is the major repository of manually curated annotations of intrinsically disordered proteins …

[HTML][HTML] On the potential of machine learning to examine the relationship between sequence, structure, dynamics and function of intrinsically disordered proteins

K Lindorff-Larsen, BB Kragelund - Journal of Molecular Biology, 2021 - Elsevier
Intrinsically disordered proteins (IDPs) constitute a broad set of proteins with few uniting and
many diverging properties. IDPs—and intrinsically disordered regions (IDRs) interspersed …

[HTML][HTML] On the roles of intrinsically disordered proteins and regions in cell communication and signaling

SE Bondos, AK Dunker, VN Uversky - Cell Communication and Signaling, 2021 - Springer
For proteins, the sequence→ structure→ function paradigm applies primarily to enzymes,
transmembrane proteins, and signaling domains. This paradigm is not universal, but rather …

Tutorial: a guide for the selection of fast and accurate computational tools for the prediction of intrinsic disorder in proteins

L Kurgan, G Hu, K Wang, S Ghadermarzi, B Zhao… - Nature …, 2023 - nature.com
Intrinsic disorder is instrumental for a wide range of protein functions, and its analysis, using
computational predictions from primary structures, complements secondary and tertiary …

Effector identification in plant pathogens

AH Lovelace, S Dorhmi, MT Hulin, Y Li… - …, 2023 - Am Phytopath Society
Effectors play a central role in determining the outcome of plant− pathogen interactions. As
key virulence proteins, effectors are collectively indispensable for disease development. By …

DisoLipPred: accurate prediction of disordered lipid-binding residues in protein sequences with deep recurrent networks and transfer learning

A Katuwawala, B Zhao, L Kurgan - Bioinformatics, 2022 - academic.oup.com
Motivation Intrinsically disordered protein regions interact with proteins, nucleic acids and
lipids. Regions that bind lipids are implicated in a wide spectrum of cellular functions and …

DisProt in 2024: improving function annotation of intrinsically disordered proteins

MC Aspromonte, MV Nugnes, F Quaglia… - Nucleic Acids …, 2024 - academic.oup.com
Abstract DisProt (URL: https://disprot. org) is the gold standard database for intrinsically
disordered proteins and regions, providing valuable information about their functions. The …

DEPICTER2: a comprehensive webserver for intrinsic disorder and disorder function prediction

S Basu, J Gsponer, L Kurgan - Nucleic Acids Research, 2023 - academic.oup.com
Intrinsic disorder in proteins is relatively abundant in nature and essential for a broad
spectrum of cellular functions. While disorder can be accurately predicted from protein …

Intrinsically disordered proteins/regions and insight into their biomolecular interactions

P Chakrabarti, D Chakravarty - Biophysical Chemistry, 2022 - Elsevier
Proteins may vary from being rigid to having flexible regions to being completely disordered,
either as an intrinsically disordered protein (IDP) or having specific intrinsically disordered …