Literature DB >> 27111288

Advances in NMR Methods To Map Allosteric Sites: From Models to Translation.

Stephen Boulton1, Giuseppe Melacini1.   

Abstract

The last five years have witnessed major developments in the understanding of the allosteric phenomenon, broadly defined as coupling between remote molecular sites. Such advances have been driven not only by new theoretical models and pharmacological applications of allostery, but also by progress in the experimental approaches designed to map allosteric sites and transitions. Among these techniques, NMR spectroscopy has played a major role given its unique near-atomic resolution and sensitivity to the dynamics that underlie allosteric couplings. Here, we highlight recent progress in the NMR methods tailored to investigate allostery with the goal of offering an overview of which NMR approaches are best suited for which allosterically relevant questions. The picture of the allosteric "NMR toolbox" is provided starting from one of the simplest models of allostery (i.e., the four-state thermodynamic cycle) and continuing to more complex multistate mechanisms. We also review how such an "NMR toolbox" has assisted the elucidation of the allosteric molecular basis for disease-related mutations and the discovery of novel leads for allosteric drugs. From this overview, it is clear that NMR plays a central role not only in experimentally validating transformative theories of allostery, but also in tapping the full translational potential of allosteric systems.

Year:  2016        PMID: 27111288     DOI: 10.1021/acs.chemrev.5b00718

Source DB:  PubMed          Journal:  Chem Rev        ISSN: 0009-2665            Impact factor:   60.622


  23 in total

1.  Automation of peak-tracking analysis of stepwise perturbed NMR spectra.

Authors:  Tommaso Banelli; Marco Vuano; Federico Fogolari; Andrea Fusiello; Gennaro Esposito; Alessandra Corazza
Journal:  J Biomol NMR       Date:  2017-02-17       Impact factor: 2.835

2.  Identifying coupled clusters of allostery participants through chemical shift perturbations.

Authors:  Yunyao Xu; Dongyu Zhang; Rivkah Rogawski; Crina M Nimigean; Ann E McDermott
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-24       Impact factor: 11.205

Review 3.  Applications of NMR and computational methodologies to study protein dynamics.

Authors:  Chitra Narayanan; Khushboo Bafna; Louise D Roux; Pratul K Agarwal; Nicolas Doucet
Journal:  Arch Biochem Biophys       Date:  2017-05-05       Impact factor: 4.013

4.  Cracking the allosteric code of NMR chemical shifts.

Authors:  Bryan VanSchouwen; Giuseppe Melacini
Journal:  Proc Natl Acad Sci U S A       Date:  2016-08-10       Impact factor: 11.205

Review 5.  Engineered control of enzyme structural dynamics and function.

Authors:  David D Boehr; Rebecca N D'Amico; Kathleen F O'Rourke
Journal:  Protein Sci       Date:  2018-02-16       Impact factor: 6.725

6.  Mechanisms of Specific versus Nonspecific Interactions of Aggregation-Prone Inhibitors and Attenuators.

Authors:  Stephen Boulton; Rajeevan Selvaratnam; Rashik Ahmed; Katherine Van; Xiaodong Cheng; Giuseppe Melacini
Journal:  J Med Chem       Date:  2019-05-10       Impact factor: 7.446

7.  Free energy landscape remodeling of the cardiac pacemaker channel explains the molecular basis of familial sinus bradycardia.

Authors:  Stephen Boulton; Madoka Akimoto; Sam Akbarizadeh; Giuseppe Melacini
Journal:  J Biol Chem       Date:  2017-02-07       Impact factor: 5.157

8.  Identification of core allosteric sites through temperature- and nucleus-invariant chemical shift covariance.

Authors:  Hebatallah Mohamed; Ubaidullah Baryar; Amir Bashiri; Rajeevan Selvaratnam; Bryan VanSchouwen; Giuseppe Melacini
Journal:  Biophys J       Date:  2022-05-10       Impact factor: 3.699

9.  Site-directed spin label electron paramagnetic resonance spectroscopy as a probe of conformational dynamics in the Fe(III) "locked-off" state of the CO-sensing transcription factor CooA.

Authors:  Judy P Hines; Matthew R Dent; Daniel J Stevens; Judith N Burstyn
Journal:  Protein Sci       Date:  2018-09       Impact factor: 6.725

10.  NMR Relaxation Dispersion Reveals Macrocycle Breathing Dynamics in a Cyclodextrin-based Rotaxane.

Authors:  Shannon Stoffel; Qi-Wei Zhang; Dong-Hao Li; Bradley D Smith; Jeffrey W Peng
Journal:  J Am Chem Soc       Date:  2020-04-08       Impact factor: 15.419

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