Literature DB >> 24360766

Homonuclear decoupling for enhancing resolution and sensitivity in NOE and RDC measurements of peptides and proteins.

Jinfa Ying1, Julien Roche1, Ad Bax2.   

Abstract

Application of band-selective homonuclear (BASH) (1)H decoupling pulses during acquisition of the (1)H free induction decay is shown to be an efficient procedure for removal of scalar and residual dipolar couplings between amide and aliphatic protons. BASH decoupling can be applied in both dimensions of a homonuclear 2D NMR experiment and is particularly useful for enhancing spectral resolution in the H(N)-H(α) region of NOESY spectra of peptides and proteins, which contain important information on the backbone torsion angles. The method then also prevents generation of zero quantum and Hz(N)-Hz(α) terms, thereby facilitating analysis of intraresidue interactions. Application to the NOESY spectrum of a hexapeptide fragment of the intrinsically disordered protein α-synuclein highlights the considerable diffusion anisotropy present in linear peptides. Removal of residual dipolar couplings between H(N) and aliphatic protons in weakly aligned proteins increases resolution in the (1)H-(15)N HSQC region of the spectrum and allows measurement of RDCs in samples that are relatively strongly aligned. The approach is demonstrated for measurement of RDCs in protonated (15)N/(13)C-enriched ubiquitin, aligned in Pf1, yielding improved fitting to the ubiquitin structure. Published by Elsevier Inc.

Entities:  

Keywords:  Diffusion anisotropy; IDP; Liquid crystal; NOESY; RDC; Residual dipolar coupling; Synuclein; Ubiquitin; Weak alignment

Mesh:

Substances:

Year:  2013        PMID: 24360766      PMCID: PMC3965638          DOI: 10.1016/j.jmr.2013.11.006

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  17 in total

1.  Characterization of molecular alignment in aqueous suspensions of Pf1 bacteriophage.

Authors:  M Zweckstetter; A Bax
Journal:  J Biomol NMR       Date:  2001-08       Impact factor: 2.835

2.  Pure shift 1H NMR: a resolution of the resolution problem?

Authors:  Juan A Aguilar; Stephen Faulkner; Mathias Nilsson; Gareth A Morris
Journal:  Angew Chem Int Ed Engl       Date:  2010-05-25       Impact factor: 15.336

3.  Protonless NMR experiments for sequence-specific assignment of backbone nuclei in unfolded proteins.

Authors:  Wolfgang Bermel; Ivano Bertini; Isabella C Felli; Yong-Min Lee; Claudio Luchinat; Roberta Pierattelli
Journal:  J Am Chem Soc       Date:  2006-03-29       Impact factor: 15.419

Review 4.  Measurement of J and dipolar couplings from simplified two-dimensional NMR spectra.

Authors:  M Ottiger; F Delaglio; A Bax
Journal:  J Magn Reson       Date:  1998-04       Impact factor: 2.229

5.  Very large residual dipolar couplings from deuterated ubiquitin.

Authors:  Joshua M Ward; Nikolai R Skrynnikov
Journal:  J Biomol NMR       Date:  2012-07-25       Impact factor: 2.835

6.  Line narrowing in spectra of proteins dissolved in a dilute liquid crystalline phase by band-selective adiabatic decoupling: application to 1HN-15N residual dipolar coupling measurements.

Authors:  C W Vander Kooi; E Kupce; E R Zuiderweg; M Pellecchia
Journal:  J Biomol NMR       Date:  1999-12       Impact factor: 2.835

7.  Structure and dynamics of the homologous series of alanine peptides: a joint molecular dynamics/NMR study.

Authors:  Jürgen Graf; Phuong H Nguyen; Gerhard Stock; Harald Schwalbe
Journal:  J Am Chem Soc       Date:  2007-02-07       Impact factor: 15.419

8.  Quantification of the calcium-induced secondary structural changes in the regulatory domain of troponin-C.

Authors:  S M Gagné; S Tsuda; M X Li; M Chandra; L B Smillie; B D Sykes
Journal:  Protein Sci       Date:  1994-11       Impact factor: 6.725

9.  A novel approach for sequential assignment of 1H, 13C, and 15N spectra of proteins: heteronuclear triple-resonance three-dimensional NMR spectroscopy. Application to calmodulin.

Authors:  M Ikura; L E Kay; A Bax
Journal:  Biochemistry       Date:  1990-05-15       Impact factor: 3.162

10.  Monomeric α-synuclein binds Congo Red micelles in a disordered manner.

Authors:  Alexander S Maltsev; Alexander Grishaev; Ad Bax
Journal:  Biochemistry       Date:  2012-01-04       Impact factor: 3.162

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  21 in total

Review 1.  NMR studies of dynamic biomolecular conformational ensembles.

Authors:  Dennis A Torchia
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2014-11-28       Impact factor: 9.795

2.  ¹³Cα decoupling during direct observation of carbonyl resonances in solution NMR of isotopically enriched proteins.

Authors:  Jinfa Ying; Fang Li; Jung Ho Lee; Ad Bax
Journal:  J Biomol NMR       Date:  2014-08-17       Impact factor: 2.835

3.  Ultrahigh-resolution NMR spectroscopy.

Authors:  Mohammadali Foroozandeh; Ralph W Adams; Nicola J Meharry; Damien Jeannerat; Mathias Nilsson; Gareth A Morris
Journal:  Angew Chem Int Ed Engl       Date:  2014-05-26       Impact factor: 15.336

4.  Quarterly intrinsic disorder digest (April-May-June, 2014).

Authors:  Shelly DeForte; Vladimir N Uversky
Journal:  Intrinsically Disord Proteins       Date:  2017-03-01

5.  Easy and unambiguous sequential assignments of intrinsically disordered proteins by correlating the backbone 15N or 13C' chemical shifts of multiple contiguous residues in highly resolved 3D spectra.

Authors:  Yuichi Yoshimura; Natalia V Kulminskaya; Frans A A Mulder
Journal:  J Biomol NMR       Date:  2015-01-11       Impact factor: 2.835

6.  MERA: a webserver for evaluating backbone torsion angle distributions in dynamic and disordered proteins from NMR data.

Authors:  Alexey B Mantsyzov; Yang Shen; Jung Ho Lee; Gerhard Hummer; Ad Bax
Journal:  J Biomol NMR       Date:  2015-07-29       Impact factor: 2.835

7.  Quantitative evaluation of positive ϕ angle propensity in flexible regions of proteins from three-bond J couplings.

Authors:  Jung Ho Lee; Jinfa Ying; Ad Bax
Journal:  Phys Chem Chem Phys       Date:  2016-02-17       Impact factor: 3.676

8.  A maximum entropy approach to the study of residue-specific backbone angle distributions in α-synuclein, an intrinsically disordered protein.

Authors:  Alexey B Mantsyzov; Alexander S Maltsev; Jinfa Ying; Yang Shen; Gerhard Hummer; Ad Bax
Journal:  Protein Sci       Date:  2014-07-22       Impact factor: 6.725

9.  Accurate measurement of (3)J(HNHα) couplings in small or disordered proteins from WATERGATE-optimized TROSY spectra.

Authors:  Julien Roche; Jinfa Ying; Ad Bax
Journal:  J Biomol NMR       Date:  2015-12-10       Impact factor: 2.835

10.  Perfecting band selective homo-decoupling for decoupling two signals coupled within the same band.

Authors:  Ajay Verma; Subrato Bhattacharya; Bikash Baishya
Journal:  RSC Adv       Date:  2018-05-30       Impact factor: 4.036

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