Literature DB >> 18574698

Using relaxation dispersion NMR spectroscopy to determine structures of excited, invisible protein states.

D Flemming Hansen1, Pramodh Vallurupalli, Lewis E Kay.   

Abstract

Currently the main focus of structural biology is the determination of static three-dimensional representations of biomolecules that for the most part correspond to low energy (ground state) conformations. However, it is becoming increasingly well recognized that higher energy structures often play important roles in function as well. Because these conformers are populated to only low levels and are often only transiently formed their study is not amenable to many of the tools of structural biology. In this perspective we discuss the role of CPMG-based relaxation dispersion NMR spectroscopy in characterizing these low populated, invisible states. It is shown that robust methods for measuring both backbone chemical shifts and residual anisotropic interactions in the excited state are in place and that these data provide valuable restraints for structural studies of invisible conformers.

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Year:  2008        PMID: 18574698     DOI: 10.1007/s10858-008-9251-5

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


  49 in total

1.  Extending the range of amide proton relaxation dispersion experiments in proteins using a constant-time relaxation-compensated CPMG approach.

Authors:  Rieko Ishima; Dennis A Torchia
Journal:  J Biomol NMR       Date:  2003-03       Impact factor: 2.835

2.  Low-populated folding intermediates of Fyn SH3 characterized by relaxation dispersion NMR.

Authors:  Dmitry M Korzhnev; Xavier Salvatella; Michele Vendruscolo; Ariel A Di Nardo; Alan R Davidson; Christopher M Dobson; Lewis E Kay
Journal:  Nature       Date:  2004-07-29       Impact factor: 49.962

3.  Simultaneous determination of protein structure and dynamics.

Authors:  Kresten Lindorff-Larsen; Robert B Best; Mark A Depristo; Christopher M Dobson; Michele Vendruscolo
Journal:  Nature       Date:  2005-01-13       Impact factor: 49.962

4.  Solution NMR spin relaxation methods for characterizing chemical exchange in high-molecular-weight systems.

Authors:  Arthur G Palmer; Michael J Grey; Chunyu Wang
Journal:  Methods Enzymol       Date:  2005       Impact factor: 1.600

5.  The biologically relevant targets and binding affinity requirements for the function of the yeast actin-binding protein 1 Src-homology 3 domain vary with genetic context.

Authors:  Jennifer Haynes; Bianca Garcia; Elliott J Stollar; Arianna Rath; Brenda J Andrews; Alan R Davidson
Journal:  Genetics       Date:  2007-04-03       Impact factor: 4.562

6.  Measurement of bond vector orientations in invisible excited states of proteins.

Authors:  Pramodh Vallurupalli; D Flemming Hansen; Elliott Stollar; Eva Meirovitch; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-15       Impact factor: 11.205

7.  Using relaxation dispersion NMR spectroscopy to determine structures of excited, invisible protein states.

Authors:  D Flemming Hansen; Pramodh Vallurupalli; Lewis E Kay
Journal:  J Biomol NMR       Date:  2008-06-24       Impact factor: 2.835

8.  Nuclear magnetic resonance methods for determining chemical-exchange rates.

Authors:  A Allerhand; H S Gutowsky; J Jonas; R A Meinzer
Journal:  J Am Chem Soc       Date:  1966-07-20       Impact factor: 15.419

9.  Differential multiple-quantum relaxation arising from cross-correlated time-modulation of isotropic chemical shifts.

Authors:  K Kloiber; R Konrat
Journal:  J Biomol NMR       Date:  2000-09       Impact factor: 2.835

10.  Disulfide bond isomerization in basic pancreatic trypsin inhibitor: multisite chemical exchange quantified by CPMG relaxation dispersion and chemical shift modeling.

Authors:  Michael J Grey; Chunyu Wang; Arthur G Palmer
Journal:  J Am Chem Soc       Date:  2003-11-26       Impact factor: 15.419

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  41 in total

1.  Characterization of Chemical Exchange Using Relaxation Dispersion of Hyperpolarized Nuclear Spins.

Authors:  Mengxiao Liu; Yaewon Kim; Christian Hilty
Journal:  Anal Chem       Date:  2017-08-09       Impact factor: 6.986

Review 2.  Relaxation dispersion NMR spectroscopy as a tool for detailed studies of protein folding.

Authors:  Philipp Neudecker; Patrik Lundström; Lewis E Kay
Journal:  Biophys J       Date:  2009-03-18       Impact factor: 4.033

3.  NMR paves the way for atomic level descriptions of sparsely populated, transiently formed biomolecular conformers.

Authors:  Ashok Sekhar; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-18       Impact factor: 11.205

4.  Two-dimensional NMR and all-atom molecular dynamics of cytochrome P450 CYP119 reveal hidden conformational substates.

Authors:  Jed N Lampe; Relly Brandman; Santhosh Sivaramakrishnan; Paul R Ortiz de Montellano
Journal:  J Biol Chem       Date:  2010-01-22       Impact factor: 5.157

5.  Using relaxation dispersion NMR spectroscopy to determine structures of excited, invisible protein states.

Authors:  D Flemming Hansen; Pramodh Vallurupalli; Lewis E Kay
Journal:  J Biomol NMR       Date:  2008-06-24       Impact factor: 2.835

6.  Pressure-dependent structure changes in barnase on ligand binding reveal intermediate rate fluctuations.

Authors:  David J Wilton; Ryo Kitahara; Kazuyuki Akasaka; Maya J Pandya; Mike P Williamson
Journal:  Biophys J       Date:  2009-09-02       Impact factor: 4.033

Review 7.  NMR spectroscopy brings invisible protein states into focus.

Authors:  Andrew J Baldwin; Lewis E Kay
Journal:  Nat Chem Biol       Date:  2009-11       Impact factor: 15.040

8.  Quantifying millisecond time-scale exchange in proteins by CPMG relaxation dispersion NMR spectroscopy of side-chain carbonyl groups.

Authors:  Alexandar L Hansen; Lewis E Kay
Journal:  J Biomol NMR       Date:  2011-06-18       Impact factor: 2.835

Review 9.  Exploring sparsely populated states of macromolecules by diamagnetic and paramagnetic NMR relaxation.

Authors:  G Marius Clore
Journal:  Protein Sci       Date:  2011-02       Impact factor: 6.725

10.  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

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