Literature DB >> 16637644

Non-uniformly sampled double-TROSY hNcaNH experiments for NMR sequential assignments of large proteins.

Dominique P Frueh1, Zhen-Yu J Sun, David A Vosburg, Christopher T Walsh, Jeffrey C Hoch, Gerhard Wagner.   

Abstract

The initial step of protein NMR resonance assignments typically identifies the sequence positions of 1H-15N HSQC cross-peaks. This is usually achieved by tediously comparing strips of multiple triple-resonance experiments. More conveniently, this could be obtained directly with hNcaNH and hNcocaNH-type experiments. However, in large proteins and at very high fields, rapid transverse relaxation severely limits the sensitivity of these experiments, and the limited spectral resolution obtainable in conventionally recorded experiments leaves many assignments ambiguous. We have developed alternative hNcaNH experiments that overcome most of these limitations. The TROSY technique was implemented for semiconstant time evolutions in both indirect dimensions, which results in remarkable sensitivity and resolution enhancements. Non-uniform sampling in both indirect dimensions combined with Maximum Entropy (MaxEnt) reconstruction enables such dramatic resolution enhancement while maintaining short measuring times. Experiments are presented that provide either bidirectional or unidirectional connectivities. The experiments do not involve carbonyl coherences and thus do not suffer from fast chemical shift anisotropy-mediated relaxation otherwise encountered at very high fields. The method was applied to a 300 microM sample of a 37 kDa fragment of the E. coli enterobactin synthetase module EntF, for which high-resolution spectra with an excellent signal-to-noise ratio were obtained within 4 days each.

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Year:  2006        PMID: 16637644      PMCID: PMC2527460          DOI: 10.1021/ja0584222

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  24 in total

1.  A novel approach for the sequential backbone assignment of larger proteins: selective intra-HNCA and DQ-HNCA.

Authors:  Daniel Nietlispach; Yutaka Ito; Ernest D Laue
Journal:  J Am Chem Soc       Date:  2002-09-18       Impact factor: 15.419

Review 2.  Nuclear magnetic resonance spectroscopy of high-molecular-weight proteins.

Authors:  Vitali Tugarinov; Peter M Hwang; Lewis E Kay
Journal:  Annu Rev Biochem       Date:  2004       Impact factor: 23.643

3.  Accelerated acquisition of high resolution triple-resonance spectra using non-uniform sampling and maximum entropy reconstruction.

Authors:  David Rovnyak; Dominique P Frueh; Mallika Sastry; Zhen-Yu J Sun; Alan S Stern; Jeffrey C Hoch; Gerhard Wagner
Journal:  J Magn Reson       Date:  2004-09       Impact factor: 2.229

4.  Fast acquisition of NMR spectra using Fourier transform of non-equispaced data.

Authors:  Dominique Marion
Journal:  J Biomol NMR       Date:  2005-06       Impact factor: 2.835

5.  Integration of spin-state-selective excitation into 2D NMR correlation experiments with the heteronuclear ZQ/2Q pi rotations for 1JXH- resolved E.COSY-type measurements of heteronuclear coupling constants in proteins.

Authors:  A Meissner; J O Duus; O W Sørensen
Journal:  J Biomol NMR       Date:  1997-07       Impact factor: 2.835

Review 6.  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

7.  Quantification of maximum-entropy spectrum reconstructions.

Authors:  P Schmieder; A S Stern; G Wagner; J C Hoch
Journal:  J Magn Reson       Date:  1997-04       Impact factor: 2.229

8.  Application of nonlinear sampling schemes to COSY-type spectra.

Authors:  P Schmieder; A S Stern; G Wagner; J C Hoch
Journal:  J Biomol NMR       Date:  1993-09       Impact factor: 2.835

9.  Improved sensitivity and coherence selection for [15N,1H]-TROSY elements in triple resonance experiments.

Authors:  M Salzmann; G Wider; K Pervushin; K Wüthrich
Journal:  J Biomol NMR       Date:  1999-10       Impact factor: 2.835

10.  Amino acid type determination in the sequential assignment procedure of uniformly 13C/15N-enriched proteins.

Authors:  S Grzesiek; A Bax
Journal:  J Biomol NMR       Date:  1993-03       Impact factor: 2.835

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  35 in total

1.  Recent Advances in the Application of Solution NMR Spectroscopy to Multi-Span Integral Membrane Proteins.

Authors:  Hak Jun Kim; Stanley C Howell; Wade D Van Horn; Young Ho Jeon; Charles R Sanders
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2009-11-01       Impact factor: 9.795

2.  NMR structural investigation of the mitochondrial outer membrane protein VDAC and its interaction with antiapoptotic Bcl-xL.

Authors:  Thomas J Malia; Gerhard Wagner
Journal:  Biochemistry       Date:  2007-01-16       Impact factor: 3.162

3.  Random sampling of evolution time space and Fourier transform processing.

Authors:  Krzysztof Kazimierczuk; Anna Zawadzka; Wiktor Koźmiński; Igor Zhukov
Journal:  J Biomol NMR       Date:  2006-09-21       Impact factor: 2.835

4.  13C- 13C NOESY spectra of a 480 kDa protein: solution NMR of ferritin.

Authors:  Manolis Matzapetakis; Paola Turano; Elizabeth C Theil; Ivano Bertini
Journal:  J Biomol NMR       Date:  2007-06-07       Impact factor: 2.835

5.  Alternate 13C-12C labeling for complete mainchain resonance assignments using C alpha direct-detection with applicability toward fast relaxing protein systems.

Authors:  Koh Takeuchi; Zhen-Yu J Sun; Gerhard Wagner
Journal:  J Am Chem Soc       Date:  2008-12-24       Impact factor: 15.419

6.  4D non-uniformly sampled HCBCACON and ¹J(NCα)-selective HCBCANCO experiments for the sequential assignment and chemical shift analysis of intrinsically disordered proteins.

Authors:  Jiří Nováček; Noam Y Haba; Jordan H Chill; Lukáš Zídek; Vladimír Sklenář
Journal:  J Biomol NMR       Date:  2012-05-13       Impact factor: 2.835

7.  Efficient protocol for backbone and side-chain assignments of large, intrinsically disordered proteins: transient secondary structure analysis of 49.2 kDa microtubule associated protein 2c.

Authors:  Jiří Nováček; Lubomír Janda; Radka Dopitová; Lukáš Žídek; Vladimír Sklenář
Journal:  J Biomol NMR       Date:  2013-07-23       Impact factor: 2.835

8.  Assembly of phospholipid nanodiscs of controlled size for structural studies of membrane proteins by NMR.

Authors:  Franz Hagn; Mahmoud L Nasr; Gerhard Wagner
Journal:  Nat Protoc       Date:  2017-12-07       Impact factor: 13.491

9.  Backbone and methyl resonance assignments of the 42 kDa human Hsc70 nucleotide binding domain in the ADP state.

Authors:  Erik R P Zuiderweg; Jason E Gestwicki
Journal:  Biomol NMR Assign       Date:  2016-10-03       Impact factor: 0.746

Review 10.  Magic angle spinning NMR of viruses.

Authors:  Caitlin M Quinn; Manman Lu; Christopher L Suiter; Guangjin Hou; Huilan Zhang; Tatyana Polenova
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-02-16       Impact factor: 9.795

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