Literature DB >> 12766401

Off-resonance R1rho relaxation outside of the fast exchange limit: an experimental study of a cavity mutant of T4 lysozyme.

Dmitry M Korzhnev1, Vladislav Yu Orekhov, Frederick W Dahlquist, Lewis E Kay.   

Abstract

An (15)N off-resonance R(1rho) spin relaxation study of an L99A point mutant of T4 lysozyme is presented. Previous CPMG-based relaxation dispersion studies of exchange in this protein have established that the molecule interconverts between a populated ground state and an excited state (3.4%) with an exchange rate constant of 1450 s(-1) at 25 degrees C. It is shown that for the majority of residues in this protein the offset dependence of the R(1rho) relaxation rates cannot be well fit using models which are only valid in the fast exchange regime. In contrast, a recently derived expression by Trott and Palmer (J. Magn. Reson., 154, 157-160, 2002) which is valid over a wider window of exchange than other relations, is shown to fit the data well. Values of (signed) chemical shift differences between exchanging sites have been extracted and are in reasonable agreement with shift differences measured using CPMG methods. A set of simulations is presented which help establish the exchange regimes that are best suited to analysis by off-resonance R(1rho) techniques.

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Year:  2003        PMID: 12766401     DOI: 10.1023/a:1023039902737

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


  24 in total

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Authors:  D M Korzhneva; I V Ibraghimov; M Billeter; V Y Orekhov
Journal:  J Biomol NMR       Date:  2001-11       Impact factor: 2.835

2.  Slow dynamics in folded and unfolded states of an SH3 domain.

Authors:  M Tollinger; N R Skrynnikov; F A Mulder; J D Forman-Kay; L E Kay
Journal:  J Am Chem Soc       Date:  2001-11-21       Impact factor: 15.419

3.  Slow internal dynamics in proteins: application of NMR relaxation dispersion spectroscopy to methyl groups in a cavity mutant of T4 lysozyme.

Authors:  Frans A A Mulder; Bin Hon; Anthony Mittermaier; Frederick W Dahlquist; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2002-02-20       Impact factor: 15.419

Review 4.  NMR methods for characterizing microsecond to millisecond dynamics in recognition and catalysis.

Authors:  Mikael Akke
Journal:  Curr Opin Struct Biol       Date:  2002-10       Impact factor: 6.809

5.  Specificity of ligand binding in a buried nonpolar cavity of T4 lysozyme: linkage of dynamics and structural plasticity.

Authors:  A Morton; B W Matthews
Journal:  Biochemistry       Date:  1995-07-11       Impact factor: 3.162

6.  Response of a protein structure to cavity-creating mutations and its relation to the hydrophobic effect.

Authors:  A E Eriksson; W A Baase; X J Zhang; D W Heinz; M Blaber; E P Baldwin; B W Matthews
Journal:  Science       Date:  1992-01-10       Impact factor: 47.728

7.  Probing slow time scale dynamics at methyl-containing side chains in proteins by relaxation dispersion NMR measurements: application to methionine residues in a cavity mutant of T4 lysozyme.

Authors:  N R Skrynnikov; F A Mulder; B Hon; F W Dahlquist; L E Kay
Journal:  J Am Chem Soc       Date:  2001-05-16       Impact factor: 15.419

8.  Protein dynamics studied by rotating frame 15N spin relaxation times.

Authors:  T Szyperski; P Luginbühl; G Otting; P Güntert; K Wüthrich
Journal:  J Biomol NMR       Date:  1993-03       Impact factor: 2.835

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.  Backbone dynamics of (1-71)bacterioopsin studied by two-dimensional 1H-15N NMR spectroscopy.

Authors:  K V Pervushin; A S Arseniev
Journal:  Eur J Biochem       Date:  1994-02-01
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  12 in total

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2.  Improved magnetization alignment schemes for spin-lock relaxation experiments.

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3.  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

4.  Measurement of signs of chemical shift differences between ground and excited protein states: a comparison between H(S/M)QC and R1rho methods.

Authors:  Renate Auer; D Flemming Hansen; Philipp Neudecker; Dmitry M Korzhnev; D Ranjith Muhandiram; Robert Konrat; Lewis E Kay
Journal:  J Biomol NMR       Date:  2009-12-22       Impact factor: 2.835

5.  An R(1ρ) expression for a spin in chemical exchange between two sites with unequal transverse relaxation rates.

Authors:  Andrew J Baldwin; Lewis E Kay
Journal:  J Biomol NMR       Date:  2013-01-23       Impact factor: 2.835

Review 6.  An introduction to NMR-based approaches for measuring protein dynamics.

Authors:  Ian R Kleckner; Mark P Foster
Journal:  Biochim Biophys Acta       Date:  2010-11-06

7.  Complexity of protein energy landscapes studied by solution NMR relaxation dispersion experiments.

Authors:  Gennady Khirich; J Patrick Loria
Journal:  J Phys Chem B       Date:  2015-02-20       Impact factor: 2.991

8.  A new amide proton R1rho experiment permits accurate characterization of microsecond time-scale conformational exchange.

Authors:  Christian Eichmüller; Nikolai R Skrynnikov
Journal:  J Biomol NMR       Date:  2005-08       Impact factor: 2.835

9.  A simple method for measuring signs of (1)H (N) chemical shift differences between ground and excited protein states.

Authors:  Guillaume Bouvignies; Dmitry M Korzhnev; Philipp Neudecker; D Flemming Hansen; Matthew H J Cordes; Lewis E Kay
Journal:  J Biomol NMR       Date:  2010-04-29       Impact factor: 2.835

10.  Monitoring conformational dynamics with solid-state R 1rho experiments.

Authors:  Caitlin M Quinn; Ann E McDermott
Journal:  J Biomol NMR       Date:  2009-07-28       Impact factor: 2.835

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