1. Sequence Specificity in the Entropy-Driven Binding of a Small Molecule and a Disordered Peptide
- Author
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Gabriella T. Heller, Carlo Camilloni, Alfonso De Simone, Massimiliano Bonomi, Francesco A. Aprile, Michele Vendruscolo, University of Cambridge [UK] (CAM), Università degli Studi di Milano [Milano] (UNIMI), Imperial College London, Heller, Gabrielle [0000-0002-5672-0467], Aprile, Francesco [0000-0002-5040-4420], Bonomi, Massimilano [0000-0002-7321-0004], Vendruscolo, Michele [0000-0002-3616-1610], Apollo - University of Cambridge Repository, Heller, G. T., Aprile, F. A., Bonomi, M., Camilloni, C., De Simone, A., and Vendruscolo, M.
- Subjects
0301 basic medicine ,Magnetic Resonance Spectroscopy ,Entropy ,Statistics as Topic ,small molecule ,specificity ,Peptide ,Plasma protein binding ,010402 general chemistry ,01 natural sciences ,Molecular Docking Simulation ,Biophysical Phenomena ,Proto-Oncogene Proteins c-myc ,03 medical and health sciences ,drug binding ,Structural Biology ,disordered protein ,Human proteome project ,Humans ,[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology ,Molecular Biology ,ComputingMilieux_MISCELLANEOUS ,chemistry.chemical_classification ,Intermolecular force ,Nuclear magnetic resonance spectroscopy ,Small molecule ,3. Good health ,0104 chemical sciences ,small molecules ,Thiazoles ,030104 developmental biology ,Biochemistry ,chemistry ,Biophysics ,Thiazole ,disordered proteins ,Human ,Protein Binding - Abstract
Approximately one-third of the human proteome is made up of proteins that are entirely disordered or that contain extended disordered regions. Although these disordered proteins are closely linked with many major diseases, their binding mechanisms with small molecules remain poorly understood, and a major concern is whether their specificity can be sufficient for drug development. Here, by studying the interaction of a small molecule and a disordered peptide from the oncogene protein c-Myc, we describe a “specific-diffuse” binding mechanism that exhibits sequence specificity despite being of entropic nature. By combining NMR spectroscopy, biophysical measurements, statistical inference, and molecular simulations, we provide a quantitative measure of such sequence specificity and compare it to the case of the interaction of urea, which is diffuse but not specific. To investigate whether this type of binding can generally modify intermolecular interactions, we show that it leads to an inhibition of the aggregation of the peptide. These results suggest that the binding mechanism that we report may create novel opportunities to discover drugs that target disordered proteins in their monomeric states in a specific manner.
- Published
- 2017
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