Literature DB >> 21992609

Boosting protein dynamics studies using quantitative nonuniform sampling NMR spectroscopy.

Yoh Matsuki1, Tsuyoshi Konuma, Toshimichi Fujiwara, Kenji Sugase.   

Abstract

NMR spectroscopy is uniquely suited to study protein dynamics over a wide range of time scales at atomic resolution. However, existing NMR relaxation methods require highly serial, lengthy data collection, ultimately limiting their application to short-lived samples, such as proteins in living cells. In recent years, the utility of nonuniform sampling (NUS) NMR methodologies has been increasingly recognized, but their application has been rare in relaxation measurements where highly accurate spectral quantification is demanded. Recently, Matsuki et al. developed a new NUS-processing method, SIFT (Spectroscopy by Integration of Frequency and Time domain information), which is highly robust and faithful in reproducing signals. In this work, we demonstrate the gains that are possible with more aggressive use of frequency domain information than was employed previously. This improvement is crucial for SIFT to be used in accelerating relaxation measurements while preserving full analytical accuracy. By taking the KIX domain of mouse CREB-binding protein (CBP) as an example, we demonstrate that this quantitative NUS processing method enables total 10-fold expedition of the R(2) relaxation dispersion measurements. The advanced SIFT processing should be equally useful for other NMR relaxation measurements.
© 2011 American Chemical Society

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Year:  2011        PMID: 21992609     DOI: 10.1021/jp2081116

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  14 in total

1.  Extracting protein dynamics information from overlapped NMR signals using relaxation dispersion difference NMR spectroscopy.

Authors:  Tsuyoshi Konuma; Erisa Harada; Kenji Sugase
Journal:  J Biomol NMR       Date:  2015-10-17       Impact factor: 2.835

2.  Non-uniform sampling of NMR relaxation data.

Authors:  Troels E Linnet; Kaare Teilum
Journal:  J Biomol NMR       Date:  2016-02-04       Impact factor: 2.835

3.  Accurate determination of rates from non-uniformly sampled relaxation data.

Authors:  Matthew A Stetz; A Joshua Wand
Journal:  J Biomol NMR       Date:  2016-07-08       Impact factor: 2.835

4.  Multiple frequency saturation pulses reduce CEST acquisition time for quantifying conformational exchange in biomolecules.

Authors:  Maureen Leninger; William M Marsiglia; Alexej Jerschow; Nathaniel J Traaseth
Journal:  J Biomol NMR       Date:  2018-05-23       Impact factor: 2.835

5.  Accurate scoring of non-uniform sampling schemes for quantitative NMR.

Authors:  Phillip C Aoto; R Bryn Fenwick; Gerard J A Kroon; Peter E Wright
Journal:  J Magn Reson       Date:  2014-07-02       Impact factor: 2.229

6.  Reaching the sparse-sampling limit for reconstructing a single peak in a 2D NMR spectrum using iterated maps.

Authors:  Robert L Blum; Jared Rovny; J Patrick Loria; Sean E Barrett
Journal:  J Biomol NMR       Date:  2019-07-10       Impact factor: 2.835

7.  Accelerating 2D NMR relaxation dispersion experiments using iterated maps.

Authors:  Jared Rovny; Robert L Blum; J Patrick Loria; Sean E Barrett
Journal:  J Biomol NMR       Date:  2019-07-06       Impact factor: 2.835

8.  Fast and accurate fitting of relaxation dispersion data using the flexible software package GLOVE.

Authors:  Kenji Sugase; Tsuyoshi Konuma; Jonathan C Lansing; Peter E Wright
Journal:  J Biomol NMR       Date:  2013-06-11       Impact factor: 2.835

9.  Accelerating multidimensional NMR and MRI experiments using iterated maps.

Authors:  Merideth A Frey; Zachary M Sethna; Gregory A Manley; Suvrajit Sengupta; Kurt W Zilm; J Patrick Loria; Sean E Barrett
Journal:  J Magn Reson       Date:  2013-09-21       Impact factor: 2.229

10.  Development of a method for reconstruction of crowded NMR spectra from undersampled time-domain data.

Authors:  Takumi Ueda; Chie Yoshiura; Masahiko Matsumoto; Yutaka Kofuku; Junya Okude; Keita Kondo; Yutaro Shiraishi; Koh Takeuchi; Ichio Shimada
Journal:  J Biomol NMR       Date:  2015-02-13       Impact factor: 2.835

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