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The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics
Drug discovery, in particular optimization of candidates using medicinal chemistry, is generally guided by structural biology. However, for optimizing binding kinetics, relevant for efficacy and off‐target effects, information on protein motion is important. Herein, we demonstrate for the prototypic...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7756556/ https://www.ncbi.nlm.nih.gov/pubmed/32965765 http://dx.doi.org/10.1002/anie.202009348 |
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author | Singh, Himanshu Das, Chandan K. Vasa, Suresh K. Grohe, Kristof Schäfer, Lars V. Linser, Rasmus |
author_facet | Singh, Himanshu Das, Chandan K. Vasa, Suresh K. Grohe, Kristof Schäfer, Lars V. Linser, Rasmus |
author_sort | Singh, Himanshu |
collection | PubMed |
description | Drug discovery, in particular optimization of candidates using medicinal chemistry, is generally guided by structural biology. However, for optimizing binding kinetics, relevant for efficacy and off‐target effects, information on protein motion is important. Herein, we demonstrate for the prototypical textbook example of an allegedly “rigid protein” that substantial active‐site dynamics have generally remained unrecognized, despite thousands of medicinal‐chemistry studies on this model over decades. Comparing cryogenic X‐ray structures, solid‐state NMR on micro‐crystalline protein at room temperature, and solution NMR structure and dynamics, supported by MD simulations, we show that under physiologically relevant conditions the pocket is in fact shaped by pronounced open/close conformational‐exchange dynamics. The study, which is of general significance for pharmacological research, evinces a generic pitfall in drug discovery routines. |
format | Online Article Text |
id | pubmed-7756556 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-77565562020-12-28 The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics Singh, Himanshu Das, Chandan K. Vasa, Suresh K. Grohe, Kristof Schäfer, Lars V. Linser, Rasmus Angew Chem Int Ed Engl Communications Drug discovery, in particular optimization of candidates using medicinal chemistry, is generally guided by structural biology. However, for optimizing binding kinetics, relevant for efficacy and off‐target effects, information on protein motion is important. Herein, we demonstrate for the prototypical textbook example of an allegedly “rigid protein” that substantial active‐site dynamics have generally remained unrecognized, despite thousands of medicinal‐chemistry studies on this model over decades. Comparing cryogenic X‐ray structures, solid‐state NMR on micro‐crystalline protein at room temperature, and solution NMR structure and dynamics, supported by MD simulations, we show that under physiologically relevant conditions the pocket is in fact shaped by pronounced open/close conformational‐exchange dynamics. The study, which is of general significance for pharmacological research, evinces a generic pitfall in drug discovery routines. John Wiley and Sons Inc. 2020-11-16 2020-12-14 /pmc/articles/PMC7756556/ /pubmed/32965765 http://dx.doi.org/10.1002/anie.202009348 Text en © 2020 The Authors. Published by Wiley-VCH GmbH This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Communications Singh, Himanshu Das, Chandan K. Vasa, Suresh K. Grohe, Kristof Schäfer, Lars V. Linser, Rasmus The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title | The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title_full | The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title_fullStr | The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title_full_unstemmed | The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title_short | The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics |
title_sort | active site of a prototypical “rigid” drug target is marked by extensive conformational dynamics |
topic | Communications |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7756556/ https://www.ncbi.nlm.nih.gov/pubmed/32965765 http://dx.doi.org/10.1002/anie.202009348 |
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