Literature DB >> 17334825

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

Pramodh Vallurupalli1, Lincoln Scott, James R Williamson, Lewis E Kay.   

Abstract

Simulation and experiment have been used to establish that significant artifacts can be generated in X-pulse CPMG relaxation dispersion experiments recorded on heteronuclear ABX spin-systems, such as (13)C( i )-(13)C( j )-(1)H, where (13)C( i ) and (13)C( j ) are strongly coupled. A qualitative explanation of the origin of these artifacts is presented along with a simple method to significantly reduce them. An application to the measurement of (1)H CPMG relaxation dispersion profiles in an HIV-2 TAR RNA molecule where all ribose sugars are protonated at the 2' position, deuterated at all other sugar positions and (13)C labeled at all sugar carbons is presented to illustrate the problems that strong (13)C-(13)C coupling introduces and a simple solution is proposed.

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Year:  2007        PMID: 17334825     DOI: 10.1007/s10858-006-9139-1

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.582


  15 in total

1.  Preparation of specifically 2H- and 13C-labeled ribonucleotides.

Authors:  L G Scott; T J Tolbert; J R Williamson
Journal:  Methods Enzymol       Date:  2000       Impact factor: 1.600

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.  Measurement of slow (micros-ms) time scale dynamics in protein side chains by (15)N relaxation dispersion NMR spectroscopy: application to Asn and Gln residues in a cavity mutant of T4 lysozyme.

Authors:  F A Mulder; N R Skrynnikov; B Hon; F W Dahlquist; L E Kay
Journal:  J Am Chem Soc       Date:  2001-02-07       Impact factor: 15.419

4.  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

5.  Double- and zero-quantum NMR relaxation dispersion experiments sampling millisecond time scale dynamics in proteins.

Authors:  Vladislav Yu Orekhov; Dmitry M Korzhnev; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2004-02-18       Impact factor: 15.419

6.  Hydration and packing along the folding pathway of SH3 domains by pressure-dependent NMR.

Authors:  Irina Bezsonova; Dmitry M Korzhnev; R Scott Prosser; Julie D Forman-Kay; Lewis E Kay
Journal:  Biochemistry       Date:  2006-04-18       Impact factor: 3.162

7.  New RNA labeling methods offer dramatic sensitivity enhancements in 2H NMR relaxation spectra.

Authors:  Pramodh Vallurupalli; Lincoln Scott; Mirko Hennig; James R Williamson; Lewis E Kay
Journal:  J Am Chem Soc       Date:  2006-07-26       Impact factor: 15.419

8.  Base flexibility in HIV-2 TAR RNA mapped by solution (15)N, (13)C NMR relaxation.

Authors:  Kwaku T Dayie; Alexander S Brodsky; James R Williamson
Journal:  J Mol Biol       Date:  2002-03-22       Impact factor: 5.469

9.  Intrinsic dynamics of an enzyme underlies catalysis.

Authors:  Elan Z Eisenmesser; Oscar Millet; Wladimir Labeikovsky; Dmitry M Korzhnev; Magnus Wolf-Watz; Daryl A Bosco; Jack J Skalicky; Lewis E Kay; Dorothee Kern
Journal:  Nature       Date:  2005-11-03       Impact factor: 49.962

10.  Solution structure of the HIV-2 TAR-argininamide complex.

Authors:  A S Brodsky; J R Williamson
Journal:  J Mol Biol       Date:  1997-04-04       Impact factor: 5.469

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  7 in total

1.  Solid-state deuterium NMR studies reveal micros-ns motions in the HIV-1 transactivation response RNA recognition site.

Authors:  Greg L Olsen; Dorothy C Echodu; Zahra Shajani; Michael F Bardaro; Gabriele Varani; Gary P Drobny
Journal:  J Am Chem Soc       Date:  2008-02-15       Impact factor: 15.419

2.  NMR probing of invisible excited states using selectively labeled RNAs.

Authors:  Regan M LeBlanc; Andrew P Longhini; Vitali Tugarinov; T Kwaku Dayie
Journal:  J Biomol NMR       Date:  2018-06-01       Impact factor: 2.835

3.  Quantitative measurement of exchange dynamics in proteins via (13)C relaxation dispersion of (13)CHD2-labeled samples.

Authors:  Enrico Rennella; Anne K Schuetz; Lewis E Kay
Journal:  J Biomol NMR       Date:  2016-06-01       Impact factor: 2.835

4.  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

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

Authors:  Pramodh Vallurupalli; D Flemming Hansen; Patrik Lundström; Lewis E Kay
Journal:  J Biomol NMR       Date:  2009-03-25       Impact factor: 2.835

6.  Probing RNA dynamics via longitudinal exchange and CPMG relaxation dispersion NMR spectroscopy using a sensitive 13C-methyl label.

Authors:  Karin Kloiber; Romana Spitzer; Martin Tollinger; Robert Konrat; Christoph Kreutz
Journal:  Nucleic Acids Res       Date:  2011-01-19       Impact factor: 16.971

Review 7.  Isotope Labels Combined with Solution NMR Spectroscopy Make Visible the Invisible Conformations of Small-to-Large RNAs.

Authors:  Theodore K Dayie; Lukasz T Olenginski; Kehinde M Taiwo
Journal:  Chem Rev       Date:  2022-04-20       Impact factor: 72.087

  7 in total

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