Sequence-based prediction of protein binding mode landscapes.
PLoS Comput Biol
Public Library of Science (PLoS)
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Horvath, A., Miskei, M., Ambrus, V., Vendruscolo, M., & Fuxreiter, M. (2020). Sequence-based prediction of protein binding mode landscapes.. PLoS Comput Biol, 16 (5) https://doi.org/10.1371/journal.pcbi.1007864
Interactions between disordered proteins involve a wide range of changes in the structure and dynamics of the partners involved. These changes can be classified in terms of binding modes, which include disorder-to-order (DO) transitions, when proteins fold upon binding, as well as disorder-to-disorder (DD) transitions, when the conformational heterogeneity is maintained in the bound states. Furthermore, systematic studies of these interactions are revealing that proteins may exhibit different binding modes with different partners. Proteins that exhibit this context-dependent binding can be referred to as fuzzy proteins. Here we investigate amino acid code for fuzzy binding in terms of the entropy of the probability distribution of transitions towards decreasing order. We implement these entropy calculations into the FuzPred (http://protdyn-fuzpred.org) algorithm to predict the range of context-dependent binding modes of proteins from their amino acid sequences. As we illustrate through a variety of examples, this method identifies those binding sites that are sensitive to the cellular context or post-translational modifications, and may serve as regulatory points of cellular pathways.
Research Article, Biology and life sciences, Research and analysis methods, Physical sciences
Magyar Tudományos Akadémia (HAS-11015)
Nemzeti Kutatási Fejlesztési és Innovációs Hivatal (GINOP-2.3.2-15-2016-00044)
Magyar Tudományos Akadémia (Bolyai Janos Fellowship)
External DOI: https://doi.org/10.1371/journal.pcbi.1007864
This record's URL: https://www.repository.cam.ac.uk/handle/1810/307029
Attribution 4.0 International (CC BY 4.0)
Licence URL: https://creativecommons.org/licenses/by/4.0/