Literature DB >> 19358609

Accurate sampling of high-frequency motions in proteins by steady-state (15)N-{(1)H} nuclear Overhauser effect measurements in the presence of cross-correlated relaxation.

Fabien Ferrage1, David Cowburn, Ranajeet Ghose.   

Abstract

The steady-state {(1)H}-(15)N NOE experiment is used in most common NMR analyses of backbone dynamics to accurately ascertain the effects of the fast dynamic modes. We demonstrate here that, in its most common implementation, this experiment generates an incorrect steady state in the presence of CSA/dipole cross-correlated relaxation leading to large errors in the characterization of these high-frequency modes. This affects both the quantitative and qualitative interpretation of (15)N backbone relaxation in dynamic terms. We demonstrate further that minor changes in the experimental implementation effectively remove these errors and allow a more accurate interpretation of protein backbone dynamics.

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Year:  2009        PMID: 19358609      PMCID: PMC3547682          DOI: 10.1021/ja809526q

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  18 in total

1.  A structural mode-coupling approach to 15N NMR relaxation in proteins.

Authors:  V Tugarinov; Z Liang; Y E Shapiro; J H Freed; E Meirovitch
Journal:  J Am Chem Soc       Date:  2001-04-04       Impact factor: 15.419

2.  Temperature dependence of anisotropic protein backbone dynamics.

Authors:  Tianzhi Wang; Sheng Cai; Erik R P Zuiderweg
Journal:  J Am Chem Soc       Date:  2003-07-16       Impact factor: 15.419

3.  Steady state in magnetic resonance pulse experiments.

Authors: 
Journal:  Phys Rev Lett       Date:  1992-11-23       Impact factor: 9.161

4.  Temperature dependence of NMR order parameters and protein dynamics.

Authors:  Francesca Massi; Arthur G Palmer
Journal:  J Am Chem Soc       Date:  2003-09-17       Impact factor: 15.419

5.  Mapping of two networks of residues that exhibit structural and dynamical changes upon binding in a PDZ domain protein.

Authors:  Anne Dhulesia; Joerg Gsponer; Michele Vendruscolo
Journal:  J Am Chem Soc       Date:  2008-06-18       Impact factor: 15.419

6.  Spectral density function mapping using 15N relaxation data exclusively.

Authors:  N A Farrow; O Zhang; A Szabo; D A Torchia; L E Kay
Journal:  J Biomol NMR       Date:  1995-09       Impact factor: 2.835

7.  An exchange-free measure of 15N transverse relaxation: an NMR spectroscopy application to the study of a folding intermediate with pervasive chemical exchange.

Authors:  D Flemming Hansen; Daiwen Yang; Haniqiao Feng; Zheng Zhou; Silke Wiesner; Yawen Bai; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2007-08-28       Impact factor: 15.419

8.  On the measurement of 15N-{1H} nuclear Overhauser effects.

Authors:  Fabien Ferrage; Andrea Piserchio; David Cowburn; Ranajeet Ghose
Journal:  J Magn Reson       Date:  2008-03-23       Impact factor: 2.229

9.  Backbone dynamics of a free and phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation.

Authors:  N A Farrow; R Muhandiram; A U Singer; S M Pascal; C M Kay; G Gish; S E Shoelson; T Pawson; J D Forman-Kay; L E Kay
Journal:  Biochemistry       Date:  1994-05-17       Impact factor: 3.162

10.  Practical aspects of the 2D 15N-[1h]-NOE experiment.

Authors:  Christian Renner; Michael Schleicher; Luis Moroder; Tad A Holak
Journal:  J Biomol NMR       Date:  2002-05       Impact factor: 2.835

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  34 in total

1.  An NMR strategy to detect conformational differences in a protein complexed with highly analogous inhibitors in solution.

Authors:  John D Persons; Shahid N Khan; Rieko Ishima
Journal:  Methods       Date:  2018-04-12       Impact factor: 3.608

2.  Severing of a hydrogen bond disrupts amino acid networks in the catalytically active state of the alpha subunit of tryptophan synthase.

Authors:  Jennifer M Axe; Kathleen F O'Rourke; Nicole E Kerstetter; Eric M Yezdimer; Yan M Chan; Alexander Chasin; David D Boehr
Journal:  Protein Sci       Date:  2014-12-11       Impact factor: 6.725

3.  Structural Basis for the Recognition of Eukaryotic Elongation Factor 2 Kinase by Calmodulin.

Authors:  Kwangwoon Lee; Sébastien Alphonse; Andrea Piserchio; Clint D J Tavares; David H Giles; Rebecca M Wellmann; Kevin N Dalby; Ranajeet Ghose
Journal:  Structure       Date:  2016-08-04       Impact factor: 5.006

4.  Spectral density mapping protocols for analysis of molecular motions in disordered proteins.

Authors:  Pavel Kadeřávek; Vojtěch Zapletal; Alžbeta Rabatinová; Libor Krásný; Vladimír Sklenář; Lukáš Žídek
Journal:  J Biomol NMR       Date:  2014-02-11       Impact factor: 2.835

5.  Solution Structure of the Carboxy-Terminal Tandem Repeat Domain of Eukaryotic Elongation Factor 2 Kinase and Its Role in Substrate Recognition.

Authors:  Andrea Piserchio; Nathan Will; David H Giles; Fatlum Hajredini; Kevin N Dalby; Ranajeet Ghose
Journal:  J Mol Biol       Date:  2019-05-18       Impact factor: 5.469

6.  Conformational dynamics are a key factor in signaling mediated by the receiver domain of a sensor histidine kinase from Arabidopsis thaliana.

Authors:  Olga Otrusinová; Gabriel Demo; Petr Padrta; Zuzana Jaseňáková; Blanka Pekárová; Zuzana Gelová; Agnieszka Szmitkowska; Pavel Kadeřávek; Séverine Jansen; Milan Zachrdla; Tomáš Klumpler; Jaromír Marek; Jozef Hritz; Lubomír Janda; Hideo Iwaï; Michaela Wimmerová; Jan Hejátko; Lukáš Žídek
Journal:  J Biol Chem       Date:  2017-08-31       Impact factor: 5.157

7.  Structure of the C-Terminal Helical Repeat Domain of Eukaryotic Elongation Factor 2 Kinase.

Authors:  Nathan Will; Andrea Piserchio; Isaac Snyder; Scarlet B Ferguson; David H Giles; Kevin N Dalby; Ranajeet Ghose
Journal:  Biochemistry       Date:  2016-09-14       Impact factor: 3.162

Review 8.  In-Cell NMR Spectroscopy of Intrinsically Disordered Proteins.

Authors:  Nicholas Sciolino; David S Burz; Alexander Shekhtman
Journal:  Proteomics       Date:  2019-01-15       Impact factor: 3.984

9.  Structure and dynamics of the second CARD of human RIG-I provide mechanistic insights into regulation of RIG-I activation.

Authors:  Fabien Ferrage; Kaushik Dutta; Estanislao Nistal-Villán; Jenish R Patel; María T Sánchez-Aparicio; Pablo De Ioannes; Angeliki Buku; Gloria González Aseguinolaza; Adolfo García-Sastre; Aneel K Aggarwal
Journal:  Structure       Date:  2012-10-11       Impact factor: 5.006

10.  Protein flexibility and conformational entropy in ligand design targeting the carbohydrate recognition domain of galectin-3.

Authors:  Carl Diehl; Olof Engström; Tamara Delaine; Maria Håkansson; Samuel Genheden; Kristofer Modig; Hakon Leffler; Ulf Ryde; Ulf J Nilsson; Mikael Akke
Journal:  J Am Chem Soc       Date:  2010-10-20       Impact factor: 15.419

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