Literature DB >> 32333192

Achieving pure spin effects by artifact suppression in methyl adiabatic relaxation experiments.

Fa-An Chao1, Domarin Khago1, R Andrew Byrd2.   

Abstract

Recent methyl adiabatic relaxation dispersion experiments provide examination of conformational dynamics across a very wide timescale (102-105 s-1) and, particularly, provide insight into the hydrophobic core of proteins and allosteric effects associated with modulators. The experiments require efficient decoupling of 1H and 13C spin interactions, and some artifacts have been discovered, which are associated with the design of the proton decoupling scheme. The experimental data suggest that the original design is valid; however, pulse sequences with either no proton decoupling or proton decoupling with imperfect pulses can potentially exhibit complications in the experiments. Here, we demonstrate that pulse imperfections in the proton decoupling scheme can be dramatically alleviated by using a single composite π pulse and provide pure single-exponential relaxation data. It allows the opportunity to access high-quality methyl adiabatic relaxation dispersion data by removing the cross-correlation between dipole-dipole interaction and chemical shift anisotropy. The resulting high-quality data is illustrated with the binding of an allosteric modulator (G2BR) to the ubiquitin conjugating enzyme Ube2g2.

Entities:  

Keywords:  Adiabatic relaxation dispersion; Composite decoupling; Conformational dynamics; Cross-correlation between DD and CSA; Methyl TROSY; Methyl relaxation

Year:  2020        PMID: 32333192      PMCID: PMC7430055          DOI: 10.1007/s10858-020-00312-2

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  29 in total

1.  The dynamic energy landscape of dihydrofolate reductase catalysis.

Authors:  David D Boehr; Dan McElheny; H Jane Dyson; Peter E Wright
Journal:  Science       Date:  2006-09-15       Impact factor: 47.728

2.  Genetic algorithm optimized triply compensated pulses in NMR spectroscopy.

Authors:  V S Manu; Gianluigi Veglia
Journal:  J Magn Reson       Date:  2015-09-28       Impact factor: 2.229

3.  Probing slow protein dynamics by adiabatic R(1rho) and R(2rho) NMR experiments.

Authors:  Silvia Mangia; Nathaniel J Traaseth; Gianluigi Veglia; Michael Garwood; Shalom Michaeli
Journal:  J Am Chem Soc       Date:  2010-07-28       Impact factor: 15.419

4.  Artifacts can emerge in spectra recorded with even the simplest of pulse schemes: an HMQC case study.

Authors:  Lewis E Kay
Journal:  J Biomol NMR       Date:  2019-02-23       Impact factor: 2.835

5.  Conformational Dynamics and Allostery in E2:E3 Interactions Drive Ubiquitination: gp78 and Ube2g2.

Authors:  Kalyan S Chakrabarti; Jess Li; Ranabir Das; R Andrew Byrd
Journal:  Structure       Date:  2017-04-20       Impact factor: 5.006

6.  Dynamic activation of an allosteric regulatory protein.

Authors:  Shiou-Ru Tzeng; Charalampos G Kalodimos
Journal:  Nature       Date:  2009-11-19       Impact factor: 49.962

7.  A structurally unique E2-binding domain activates ubiquitination by the ERAD E2, Ubc7p, through multiple mechanisms.

Authors:  Meredith B Metzger; Yu-He Liang; Ranabir Das; Jennifer Mariano; Shengjian Li; Jess Li; Zlatka Kostova; R Andrew Byrd; Xinhua Ji; Allan M Weissman
Journal:  Mol Cell       Date:  2013-05-09       Impact factor: 17.970

8.  Geometric Approximation: A New Computational Approach To Characterize Protein Dynamics from NMR Adiabatic Relaxation Dispersion Experiments.

Authors:  Fa-An Chao; R Andrew Byrd
Journal:  J Am Chem Soc       Date:  2016-06-07       Impact factor: 15.419

9.  Allosteric regulation of E2:E3 interactions promote a processive ubiquitination machine.

Authors:  Ranabir Das; Yu-He Liang; Jennifer Mariano; Jess Li; Tao Huang; Aaren King; Sergey G Tarasov; Allan M Weissman; Xinhua Ji; R Andrew Byrd
Journal:  EMBO J       Date:  2013-08-13       Impact factor: 11.598

10.  A single-quantum methyl 13C-relaxation dispersion experiment with improved sensitivity.

Authors:  Patrik Lundström; Pramodh Vallurupalli; Tomasz L Religa; Frederick W Dahlquist; Lewis E Kay
Journal:  J Biomol NMR       Date:  2007-04-27       Impact factor: 2.582

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