Literature DB >> 19810742

Generalized indirect covariance NMR formalism for establishment of multidimensional spin correlations.

David A Snyder1, Rafael Brüschweiler.   

Abstract

Multidimensional nuclear magnetic resonance (NMR) experiments measure spin-spin correlations, which provide important information about bond connectivities and molecular structure. However, direct observation of certain kinds of correlations can be very time-consuming due to limitations in sensitivity and resolution. Covariance NMR derives correlations between spins via the calculation of a (symmetric) covariance matrix, from which a matrix-square root produces a spectrum with enhanced resolution. Recently, the covariance concept has been adopted to the reconstruction of nonsymmetric spectra from pairs of 2D spectra that have a frequency dimension in common. Since the unsymmetric covariance NMR procedure lacks the matrix-square root step, it does not suppress relay effects and thereby may generate false positive signals due to chemical shift degeneracy. A generalized covariance formalism is presented here that embeds unsymmetric covariance processing within the context of the regular covariance transform. It permits the construction of unsymmetric covariance NMR spectra subjected to arbitrary matrix functions, such as the square root, with improved spectral properties. This formalism extends the domain of covariance NMR to include the reconstruction of nonsymmetric NMR spectra at resolutions or sensitivities that are superior to the ones achievable by direct measurements.

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Year:  2009        PMID: 19810742      PMCID: PMC2783375          DOI: 10.1021/jp9070168

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  25 in total

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Authors:  Brian E Coggins; Pei Zhou
Journal:  J Biomol NMR       Date:  2003-06       Impact factor: 2.835

Review 2.  Automation of NMR structure determination of proteins.

Authors:  Amanda S Altieri; R Andrew Byrd
Journal:  Curr Opin Struct Biol       Date:  2004-10       Impact factor: 6.809

3.  Covariance NMR spectroscopy by singular value decomposition.

Authors:  Nikola Trbovic; Serge Smirnov; Fengli Zhang; Rafael Brüschweiler
Journal:  J Magn Reson       Date:  2004-12       Impact factor: 2.229

4.  PASA--a program for automated protein NMR backbone signal assignment by pattern-filtering approach.

Authors:  Yizhuang Xu; Xiaoxia Wang; Jun Yang; Julia Vaynberg; Jun Qin
Journal:  J Biomol NMR       Date:  2006-01       Impact factor: 2.835

5.  Protein assignments without peak lists using higher-order spectra.

Authors:  Gregory Benison; Donald S Berkholz; Elisar Barbar
Journal:  J Magn Reson       Date:  2007-09-20       Impact factor: 2.229

6.  Covariance NMR in higher dimensions: application to 4D NOESY spectroscopy of proteins.

Authors:  David A Snyder; Fengli Zhang; Rafael Brüschweiler
Journal:  J Biomol NMR       Date:  2007-09-18       Impact factor: 2.835

7.  Quantitative lid dynamics of MDM2 reveals differential ligand binding modes of the p53-binding cleft.

Authors:  Scott A Showalter; Lei Bruschweiler-Li; Eric Johnson; Fengli Zhang; Rafael Brüschweiler
Journal:  J Am Chem Soc       Date:  2008-04-25       Impact factor: 15.419

8.  Automated resonance assignment of proteins using heteronuclear 3D NMR. 2. Side chain and sequence-specific assignment.

Authors:  K B Li; B C Sanctuary
Journal:  J Chem Inf Comput Sci       Date:  1997 May-Jun

9.  Analysis and elimination of artifacts in indirect covariance NMR spectra via unsymmetrical processing.

Authors:  Kirill A Blinov; Nicolay I Larin; Mikhail P Kvasha; Arvin Moser; Antony J Williams; Gary E Martin
Journal:  Magn Reson Chem       Date:  2005-12       Impact factor: 2.447

10.  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

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  9 in total

1.  Effortless assignment with 4D covariance sequential correlation maps.

Authors:  Bradley J Harden; Subrata H Mishra; Dominique P Frueh
Journal:  J Magn Reson       Date:  2015-09-21       Impact factor: 2.229

2.  The use of 1H-31P GHMBC and covariance NMR to unambiguously determine phosphate ester linkages in complex polysaccharide mixtures.

Authors:  Edward R Zartler; Gary E Martin
Journal:  J Biomol NMR       Date:  2011-09-16       Impact factor: 2.835

Review 3.  Nonuniform sampling and non-Fourier signal processing methods in multidimensional NMR.

Authors:  Mehdi Mobli; Jeffrey C Hoch
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2014-10-13       Impact factor: 9.795

Review 4.  Non-Uniform and Absolute Minimal Sampling for High-Throughput Multidimensional NMR Applications.

Authors:  Dawei Li; Alexandar L Hansen; Lei Bruschweiler-Li; Rafael Brüschweiler
Journal:  Chemistry       Date:  2018-06-19       Impact factor: 5.236

5.  A covariance NMR toolbox for MATLAB and OCTAVE.

Authors:  Timothy Short; Leigh Alzapiedi; Rafael Brüschweiler; David Snyder
Journal:  J Magn Reson       Date:  2010-12-05       Impact factor: 2.229

6.  Assignment of methyl NMR resonances of a 52 kDa protein with residue-specific 4D correlation maps.

Authors:  Subrata H Mishra; Dominique P Frueh
Journal:  J Biomol NMR       Date:  2015-05-08       Impact factor: 2.835

7.  Covariance nuclear magnetic resonance methods for obtaining protein assignments and novel correlations.

Authors:  Aswani K Kancherla; Dominique P Frueh
Journal:  Concepts Magn Reson Part A Bridg Educ Res       Date:  2018-09-16       Impact factor: 0.481

8.  A practical implementation of cross-spectrum in protein backbone resonance assignment.

Authors:  Kang Chen; Frank Delaglio; Nico Tjandra
Journal:  J Magn Reson       Date:  2009-12-24       Impact factor: 2.229

9.  Facilitated assignment of large protein NMR signals with covariance sequential spectra using spectral derivatives.

Authors:  Bradley J Harden; Scott R Nichols; Dominique P Frueh
Journal:  J Am Chem Soc       Date:  2014-09-16       Impact factor: 15.419

  9 in total

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