FuzPred: a web server for the sequence-based prediction of the context-dependent binding modes of proteins.
Details
Serval ID
serval:BIB_6EA32D9B8875
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
FuzPred: a web server for the sequence-based prediction of the context-dependent binding modes of proteins.
Journal
Nucleic acids research
ISSN
1362-4962 (Electronic)
ISSN-L
0305-1048
Publication state
Published
Issued date
05/07/2023
Peer-reviewed
Oui
Volume
51
Number
W1
Pages
W198-W206
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Publication Status: ppublish
Abstract
Proteins form complex interactions in the cellular environment to carry out their functions. They exhibit a wide range of binding modes depending on the cellular conditions, which result in a variety of ordered or disordered assemblies. To help rationalise the binding behavior of proteins, the FuzPred server predicts their sequence-based binding modes without specifying their binding partners. The binding mode defines whether the bound state is formed through a disorder-to-order transition resulting in a well-defined conformation, or through a disorder-to-disorder transition where the binding partners remain conformationally heterogeneous. To account for the context-dependent nature of the binding modes, the FuzPred method also estimates the multiplicity of binding modes, the likelihood of sampling multiple binding modes. Protein regions with a high multiplicity of binding modes may serve as regulatory sites or hot-spots for structural transitions in the assembly. To facilitate the interpretation of the predictions, protein regions with different interaction behaviors can be visualised on protein structures generated by AlphaFold. The FuzPred web server (https://fuzpred.bio.unipd.it) thus offers insights into the structural and dynamical changes of proteins upon interactions and contributes to development of structure-function relationships under a variety of cellular conditions.
Keywords
Protein Conformation, Proteins/chemistry, Computers, Protein Domains, Software
Pubmed
Web of science
Open Access
Yes
Create date
03/04/2023 10:27
Last modification date
08/08/2024 6:35