Literature DB >> 19319480

CPMG relaxation dispersion NMR experiments measuring glycine 1H alpha and 13C alpha chemical shifts in the 'invisible' excited states of proteins.

Pramodh Vallurupalli1, D Flemming Hansen, Patrik Lundström, Lewis E Kay.   

Abstract

Carr-Purcell-Meiboom-Gill (CPMG) relaxation dispersion NMR experiments are extremely powerful for characterizing millisecond time-scale conformational exchange processes in biomolecules. A large number of such CPMG experiments have now emerged for measuring protein backbone chemical shifts of sparsely populated (>0.5%), excited state conformers that cannot be directly detected in NMR spectra and that are invisible to most other biophysical methods as well. A notable deficiency is, however, the absence of CPMG experiments for measurement of (1)H(alpha) and (13)C(alpha) chemical shifts of glycine residues in the excited state that reflects the fact that in this case the (1)H(alpha), (13)C(alpha) spins form a three-spin system that is more complex than the AX (1)H(alpha)-(13)C(alpha) spin systems in the other amino acids. Here pulse sequences for recording (1)H(alpha) and (13)C(alpha) CPMG relaxation dispersion profiles derived from glycine residues are presented that provide information from which (1)H(alpha), (13)C(alpha) chemical shifts can be obtained. The utility of these experiments is demonstrated by an application to a mutant of T4 lysozyme that undergoes a millisecond time-scale exchange process facilitating the binding of hydrophobic ligands to an internal cavity in the protein.

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Year:  2009        PMID: 19319480     DOI: 10.1007/s10858-009-9310-6

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


  40 in total

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2.  The mechanism of rate-limiting motions in enzyme function.

Authors:  Eric D Watt; Hiroko Shimada; Evgenii L Kovrigin; J Patrick Loria
Journal:  Proc Natl Acad Sci U S A       Date:  2007-07-05       Impact factor: 11.205

3.  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

4.  Protein backbone angle restraints from searching a database for chemical shift and sequence homology.

Authors:  G Cornilescu; F Delaglio; A Bax
Journal:  J Biomol NMR       Date:  1999-03       Impact factor: 2.835

5.  Complementarity of ensemble and single-molecule measures of protein motion: a relaxation dispersion NMR study of an enzyme complex.

Authors:  Pramodh Vallurupalli; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2006-07-31       Impact factor: 11.205

6.  NMRPipe: a multidimensional spectral processing system based on UNIX pipes.

Authors:  F Delaglio; S Grzesiek; G W Vuister; G Zhu; J Pfeifer; A Bax
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

7.  Spin-locked multiple quantum coherence for signal enhancement in heteronuclear multidimensional NMR experiments.

Authors:  S Grzesiek; A Bax
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

8.  Probing chemical shifts of invisible states of proteins with relaxation dispersion NMR spectroscopy: how well can we do?

Authors:  D Flemming Hansen; Pramodh Vallurupalli; Patrik Lundström; Philipp Neudecker; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2008-02-01       Impact factor: 15.419

9.  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

10.  Strong coupling effects during X-pulse CPMG experiments recorded on heteronuclear ABX spin systems: artifacts and a simple solution.

Authors:  Pramodh Vallurupalli; Lincoln Scott; James R Williamson; Lewis E Kay
Journal:  J Biomol NMR       Date:  2007-03-03       Impact factor: 2.582

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  17 in total

1.  Pulsed EPR characterization of HIV-1 protease conformational sampling and inhibitor-induced population shifts.

Authors:  Zhanglong Liu; Thomas M Casey; Mandy E Blackburn; Xi Huang; Linh Pham; Ian Mitchelle S de Vera; Jeffrey D Carter; Jamie L Kear-Scott; Angelo M Veloro; Luis Galiano; Gail E Fanucci
Journal:  Phys Chem Chem Phys       Date:  2016-02-17       Impact factor: 3.676

2.  Nuclear overhauser spectroscopy of chiral CHD methylene groups.

Authors:  Rafal Augustyniak; Jan Stanek; Henri Colaux; Geoffrey Bodenhausen; Wiktor Koźmiński; Torsten Herrmann; Fabien Ferrage
Journal:  J Biomol NMR       Date:  2015-11-27       Impact factor: 2.835

Review 3.  Chemical exchange in biomacromolecules: past, present, and future.

Authors:  Arthur G Palmer
Journal:  J Magn Reson       Date:  2014-04       Impact factor: 2.229

4.  The pKa values of the catalytic residues in the retaining glycoside hydrolase T26H mutant of T4 lysozyme.

Authors:  Jacob A Brockerman; Mark Okon; Stephen G Withers; Lawrence P McIntosh
Journal:  Protein Sci       Date:  2019-01-12       Impact factor: 6.725

5.  Isotope labeling methods for studies of excited protein states by relaxation dispersion NMR spectroscopy.

Authors:  Patrik Lundström; Pramodh Vallurupalli; D Flemming Hansen; Lewis E Kay
Journal:  Nat Protoc       Date:  2009-10-22       Impact factor: 13.491

6.  Measuring the signs of the methyl 1H chemical shift differences between major and 'invisible' minor protein conformational states using methyl 1H multi-quantum spectroscopy.

Authors:  Anusha B Gopalan; Pramodh Vallurupalli
Journal:  J Biomol NMR       Date:  2018-03-21       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.  Measuring 13Cbeta chemical shifts of invisible excited states in proteins by relaxation dispersion NMR spectroscopy.

Authors:  Patrik Lundström; Hong Lin; Lewis E Kay
Journal:  J Biomol NMR       Date:  2009-05-16       Impact factor: 2.835

9.  Probing microsecond time scale dynamics in proteins by methyl (1)H Carr-Purcell-Meiboom-Gill relaxation dispersion NMR measurements. Application to activation of the signaling protein NtrC(r).

Authors:  Renee Otten; Janice Villali; Dorothee Kern; Frans A A Mulder
Journal:  J Am Chem Soc       Date:  2010-11-08       Impact factor: 15.419

10.  Solution structure of a minor and transiently formed state of a T4 lysozyme mutant.

Authors:  Guillaume Bouvignies; Pramodh Vallurupalli; D Flemming Hansen; Bruno E Correia; Oliver Lange; Alaji Bah; Robert M Vernon; Frederick W Dahlquist; David Baker; Lewis E Kay
Journal:  Nature       Date:  2011-08-21       Impact factor: 49.962

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