Literature DB >> 16458551

Faithful estimation of dynamics parameters from CPMG relaxation dispersion measurements.

Evgenii L Kovrigin1, James G Kempf, Michael J Grey, J Patrick Loria.   

Abstract

This work examines the robustness of fitting of parameters describing conformational exchange (k(ex), p(a/b), and Deltaomega) processes from CPMG relaxation dispersion data. We have analyzed the equations describing conformational exchange processes for the intrinsic inter-dependence of their parameters that leads to the existence of multiple equivalent solutions, which equally satisfy the experimental data. We have used Monte-Carlo simulations and fitting to the synthetic data sets as well as the direct 3-D mapping of the parameter space of k(ex), p(a/b), and Deltaomega to quantitatively assess the degree of the parameter inter-dependence. The demonstrated high correlation between parameters can preclude accurate dynamics parameter estimation from NMR spin-relaxation data obtained at a single static magnetic field. The strong parameter inter-dependence can readily be overcome through acquisition of spin-relaxation data at more than one static magnetic field thereby allowing accurate assessment of conformational exchange properties.

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Year:  2006        PMID: 16458551     DOI: 10.1016/j.jmr.2006.01.010

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


  42 in total

1.  GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data.

Authors:  Ian R Kleckner; Mark P Foster
Journal:  J Biomol NMR       Date:  2011-12-11       Impact factor: 2.835

2.  Heteronuclear Adiabatic Relaxation Dispersion (HARD) for quantitative analysis of conformational dynamics in proteins.

Authors:  Nathaniel J Traaseth; Fa-An Chao; Larry R Masterson; Silvia Mangia; Michael Garwood; Shalom Michaeli; Burckhard Seelig; Gianluigi Veglia
Journal:  J Magn Reson       Date:  2012-04-06       Impact factor: 2.229

Review 3.  Solution NMR Spectroscopy for the Study of Enzyme Allostery.

Authors:  George P Lisi; J Patrick Loria
Journal:  Chem Rev       Date:  2016-01-06       Impact factor: 60.622

4.  Non-uniform sampling of NMR relaxation data.

Authors:  Troels E Linnet; Kaare Teilum
Journal:  J Biomol NMR       Date:  2016-02-04       Impact factor: 2.835

5.  Extensive backbone dynamics in the GCAA RNA tetraloop analyzed using 13C NMR spin relaxation and specific isotope labeling.

Authors:  James E Johnson; Charles G Hoogstraten
Journal:  J Am Chem Soc       Date:  2008-12-10       Impact factor: 15.419

6.  Enhanced accuracy of kinetic information from CT-CPMG experiments by transverse rotating-frame spectroscopy.

Authors:  David Ban; Adam Mazur; Marta G Carneiro; T Michael Sabo; Karin Giller; Leonardus M I Koharudin; Stefan Becker; Angela M Gronenborn; Christian Griesinger; Donghan Lee
Journal:  J Biomol NMR       Date:  2013-08-15       Impact factor: 2.835

7.  A methyl 1H double quantum CPMG experiment to study protein conformational exchange.

Authors:  Anusha B Gopalan; Tairan Yuwen; Lewis E Kay; Pramodh Vallurupalli
Journal:  J Biomol NMR       Date:  2018-10-01       Impact factor: 2.835

8.  Evaluating the uncertainty in exchange parameters determined from off-resonance R1ρ relaxation dispersion for systems in fast exchange.

Authors:  Jameson R Bothe; Zachary W Stein; Hashim M Al-Hashimi
Journal:  J Magn Reson       Date:  2014-04-20       Impact factor: 2.229

Review 9.  Using NMR spectroscopy to elucidate the role of molecular motions in enzyme function.

Authors:  George P Lisi; J Patrick Loria
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-12-07       Impact factor: 9.795

10.  (13)C-NMR studies on disulfide bond isomerization in bovine pancreatic trypsin inhibitor (BPTI).

Authors:  Mitsuhiro Takeda; Yohei Miyanoiri; Tsutomu Terauchi; Masatsune Kainosho
Journal:  J Biomol NMR       Date:  2016-08-26       Impact factor: 2.835

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