Literature DB >> 22820004

Quantifying conformational dynamics using solid-state R₁ρ experiments.

Caitlin M Quinn1, Ann E McDermott.   

Abstract

We demonstrate the determination of quantitative rates of molecular reorientation in the solid state with rotating frame (R(1ρ)) relaxation measurements. Reorientation of the carbon chemical shift anisotropy (CSA) tensor was used to probe site-specific conformational exchange in a model system, d(6)-dimethyl sulfone (d(6)-DMS). The CSA as a probe of exchange has the advantage that it can still be utilized when there is no dipolar mechanism (i.e. no protons attached to the site of interest). Other works have presented R(1ρ) measurements as a general indicator of dynamics, but this study extracts quantitative rates of molecular reorientation from the R(1ρ) values. Some challenges of this technique include precise knowledge of sample temperature and determining the R(2)(0) contribution to the observed relaxation rate from interactions other than molecular reorientation, such as residual dipolar couplings or fast timescale dynamics; determination of this term is necessary in order to quantify the exchange rate due to covariance between the 2 terms. Low-temperature experiments measured an R(2)(0) value of 1.8±0.2s(-1) Allowing for an additional relaxation term (R(2)(0)), which was modeled as both temperature-dependent and temperature-independent, rates of molecular reorientation were extracted from field strength-dependent R(1ρ) measurements at four different temperatures and the activation energy was determined from these exchange rates. The activation energies determined were 74.7±4.3kJ/mol and 71.7±2.9kJ/mol for the temperature-independent and temperature-dependent R(2)(0) models respectively, in excellent agreement with literature values. The results of this study suggest important methodological considerations for the application of the method to more complicated systems such as proteins, such as the importance of deuterating samples and the need to make assumptions regarding the R(2)(0) contribution to relaxation.
Copyright © 2012 Elsevier Inc. All rights reserved.

Entities:  

Mesh:

Substances:

Year:  2012        PMID: 22820004      PMCID: PMC3572234          DOI: 10.1016/j.jmr.2012.05.014

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  29 in total

1.  The time scale of the catalytic loop motion in triosephosphate isomerase.

Authors:  S Rozovsky; A E McDermott
Journal:  J Mol Biol       Date:  2001-06-29       Impact factor: 5.469

2.  Advanced solid-state NMR methods for the elucidation of structure and dynamics of molecular, macromolecular, and supramolecular systems.

Authors:  S P Brown; H W Spiess
Journal:  Chem Rev       Date:  2001-12       Impact factor: 60.622

3.  Microsecond time scale mobility in a solid protein as studied by the 15N R(1rho) site-specific NMR relaxation rates.

Authors:  Alexey Krushelnitsky; Tatiana Zinkevich; Detlef Reichert; Veniamin Chevelkov; Bernd Reif
Journal:  J Am Chem Soc       Date:  2010-09-01       Impact factor: 15.419

4.  Measurement of site-specific 13C spin-lattice relaxation in a crystalline protein.

Authors:  Józef R Lewandowski; Julien Sein; Hans Jürgen Sass; Stephan Grzesiek; Martin Blackledge; Lyndon Emsley
Journal:  J Am Chem Soc       Date:  2010-06-23       Impact factor: 15.419

5.  Quantitative measurement of differential 15N-H(alpha/beta)T2 relaxation rates in a perdeuterated protein by MAS solid-state NMR spectroscopy.

Authors:  Veniamin Chevelkov; Anne Diehl; Bernd Reif
Journal:  Magn Reson Chem       Date:  2007-12       Impact factor: 2.447

6.  Characterization of slow conformational dynamics in solids: dipolar CODEX.

Authors:  Wenbo Li; Ann E McDermott
Journal:  J Biomol NMR       Date:  2009-08-07       Impact factor: 2.835

7.  Selective inversion investigations of slow molecular motion in solid state deuteron NMR spectroscopy.

Authors:  M J Brown; R L Vold; G L Hoatson
Journal:  Solid State Nucl Magn Reson       Date:  1996-04       Impact factor: 2.293

8.  Determination of relative tensor orientations by γ-encoded chemical shift anisotropy/heteronuclear dipolar coupling 3D NMR spectroscopy in biological solids.

Authors:  Guangjin Hou; Sivakumar Paramasivam; In-Ja L Byeon; Angela M Gronenborn; Tatyana Polenova
Journal:  Phys Chem Chem Phys       Date:  2010-10-08       Impact factor: 3.676

9.  "Cooking the sample": radiofrequency induced heating during solid-state NMR experiments.

Authors:  Jean-Baptiste d'Espinose de Lacaillerie; Benjamin Jarry; Ovidiu Pascui; Detlef Reichert
Journal:  Solid State Nucl Magn Reson       Date:  2005-10-10       Impact factor: 2.293

10.  Expanding the frequency range of the solid-state T1rho experiment for heteronuclear dipolar relaxation.

Authors:  Alexey Krushelnitsky; Rauf Kurbanov; Detlef Reichert; Guenter Hempel; Horst Schneider; Vladimir Fedotov
Journal:  Solid State Nucl Magn Reson       Date:  2002-12       Impact factor: 2.293

View more
  21 in total

1.  Mechanistic Insights into Microsecond Time-Scale Motion of Solid Proteins Using Complementary 15N and 1H Relaxation Dispersion Techniques.

Authors:  Petra Rovó; Colin A Smith; Diego Gauto; Bert L de Groot; Paul Schanda; Rasmus Linser
Journal:  J Am Chem Soc       Date:  2019-01-08       Impact factor: 15.419

2.  Solid-state NMR reveals a comprehensive view of the dynamics of the flexible, disordered N-terminal domain of amyloid-β fibrils.

Authors:  Dan Fai Au; Dmitry Ostrovsky; Riqiang Fu; Liliya Vugmeyster
Journal:  J Biol Chem       Date:  2019-02-08       Impact factor: 5.157

Review 3.  Structural biology of supramolecular assemblies by magic-angle spinning NMR spectroscopy.

Authors:  Caitlin M Quinn; Tatyana Polenova
Journal:  Q Rev Biophys       Date:  2017-01       Impact factor: 5.318

4.  Site-specific analysis of heteronuclear Overhauser effects in microcrystalline proteins.

Authors:  Juan Miguel Lopez del Amo; Vipin Agarwal; Riddhiman Sarkar; Justin Porter; Sam Asami; Martin Rübbelke; Uwe Fink; Yi Xue; Oliver F Lange; Bernd Reif
Journal:  J Biomol NMR       Date:  2014-07-03       Impact factor: 2.835

5.  Dynamic Nuclear Polarization Magic-Angle Spinning Nuclear Magnetic Resonance Combined with Molecular Dynamics Simulations Permits Detection of Order and Disorder in Viral Assemblies.

Authors:  Rupal Gupta; Huilan Zhang; Manman Lu; Guangjin Hou; Marc Caporini; Melanie Rosay; Werner Maas; Jochem Struppe; Jinwoo Ahn; In-Ja L Byeon; Hartmut Oschkinat; Kristaps Jaudzems; Emeline Barbet-Massin; Lyndon Emsley; Guido Pintacuda; Anne Lesage; Angela M Gronenborn; Tatyana Polenova
Journal:  J Phys Chem B       Date:  2019-06-11       Impact factor: 2.991

6.  Microsecond Protein Dynamics from Combined Bloch-McConnell and Near-Rotary-Resonance R1p Relaxation-Dispersion MAS NMR.

Authors:  Dominique Marion; Diego F Gauto; Isabel Ayala; Karine Giandoreggio-Barranco; Paul Schanda
Journal:  Chemphyschem       Date:  2018-12-20       Impact factor: 3.102

Review 7.  Recent advances in solid-state nuclear magnetic resonance techniques to quantify biomolecular dynamics.

Authors:  Eric D Watt; Chad M Rienstra
Journal:  Anal Chem       Date:  2014-01-07       Impact factor: 6.986

8.  Deuteron Quadrupolar Chemical Exchange Saturation Transfer (Q-CEST) Solid-State NMR for Static Powder Samples: Approach and Applications to Amyloid-β Fibrils.

Authors:  Liliya Vugmeyster; Dmitry Ostrovsky; Riqiang Fu
Journal:  Chemphyschem       Date:  2020-01-09       Impact factor: 3.102

9.  Conformational Dynamics in the Core of Human Y145Stop Prion Protein Amyloid Probed by Relaxation Dispersion NMR.

Authors:  Matthew D Shannon; Theint Theint; Dwaipayan Mukhopadhyay; Krystyna Surewicz; Witold K Surewicz; Dominique Marion; Paul Schanda; Christopher P Jaroniec
Journal:  Chemphyschem       Date:  2018-11-07       Impact factor: 3.102

10.  TmDOTP: An NMR-based thermometer for magic angle spinning NMR experiments.

Authors:  Dongyu Zhang; Boris Itin; Ann E McDermott
Journal:  J Magn Reson       Date:  2019-08-16       Impact factor: 2.229

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.