Literature DB >> 25442777

Time-shared experiments for efficient assignment of triple-selectively labeled proteins.

Frank Löhr1, Aisha Laguerre1, Christoph Bock2, Sina Reckel1, Peter J Connolly3, Norzehan Abdul-Manan3, Franz Tumulka2, Rupert Abele2, Jonathan M Moore3, Volker Dötsch4.   

Abstract

Combinatorial triple-selective labeling facilitates the NMR assignment process for proteins that are subject to signal overlap and insufficient signal-to-noise in standard triple-resonance experiments. Aiming at maximum amino-acid type and sequence-specific information, the method represents a trade-off between the number of selectively labeled samples that have to be prepared and the number of spectra to be recorded per sample. In order to address the demand of long measurement times, we here propose pulse sequences in which individual phase-shifted transients are stored separately and recombined later to produce several 2D HN(CX) type spectra that are usually acquired sequentially. Sign encoding by the phases of (13)C 90° pulses allows to either select or discriminate against (13)C' or (13)C(α) spins coupled to (15)N. As a result, (1)H-(15)N correlation maps of the various isotopomeric species present in triple-selectively labeled proteins are deconvoluted which in turn reduces problems due to spectral overlap. The new methods are demonstrated with four different membrane proteins with rotational correlation times ranging from 18 to 52 ns.
Copyright © 2014 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  BEST-TROSY; Cell-free expression; Deuteration; Hadamard decoding; Isotope labeling; Membrane proteins; Triple-resonance NMR

Mesh:

Substances:

Year:  2014        PMID: 25442777      PMCID: PMC4254601          DOI: 10.1016/j.jmr.2014.09.014

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


  79 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

2.  Unambiguous assignment of NMR protein backbone signals with a time-shared triple-resonance experiment.

Authors:  Dominique P Frueh; Haribabu Arthanari; Gerhard Wagner
Journal:  J Biomol NMR       Date:  2005-11       Impact factor: 2.835

3.  Effective rotational correlation times of proteins from NMR relaxation interference.

Authors:  Donghan Lee; Christian Hilty; Gerhard Wider; Kurt Wüthrich
Journal:  J Magn Reson       Date:  2005-09-26       Impact factor: 2.229

4.  NMR structural and dynamical investigation of the isolated voltage-sensing domain of the potassium channel KvAP: implications for voltage gating.

Authors:  Zakhar O Shenkarev; Alexander S Paramonov; Ekaterina N Lyukmanova; Lyudmila N Shingarova; Sergei A Yakimov; Maxim A Dubinnyi; Vladimir V Chupin; Mikhail P Kirpichnikov; Marcel J J Blommers; Alexander S Arseniev
Journal:  J Am Chem Soc       Date:  2010-04-28       Impact factor: 15.419

5.  Single Transition-to-single Transition Polarization Transfer (ST2-PT) in [15N,1H]-TROSY.

Authors:  K V Pervushin; G Wider; K Wüthrich
Journal:  J Biomol NMR       Date:  1998-08       Impact factor: 2.835

6.  Combinatorial triple-selective labeling as a tool to assist membrane protein backbone resonance assignment.

Authors:  Frank Löhr; Sina Reckel; Mikhail Karbyshev; Peter J Connolly; Norzehan Abdul-Manan; Frank Bernhard; Jonathan M Moore; Volker Dötsch
Journal:  J Biomol NMR       Date:  2012-01-18       Impact factor: 2.835

7.  Preparative scale expression of membrane proteins in Escherichia coli-based continuous exchange cell-free systems.

Authors:  Daniel Schwarz; Friederike Junge; Florian Durst; Nadine Frölich; Birgit Schneider; Sina Reckel; Solmaz Sobhanifar; Volker Dötsch; Frank Bernhard
Journal:  Nat Protoc       Date:  2007       Impact factor: 13.491

8.  Protein signal assignments using specific labeling and cell-free synthesis.

Authors:  Jianxia Shi; Jeffrey G Pelton; Ho S Cho; David E Wemmer
Journal:  J Biomol NMR       Date:  2004-03       Impact factor: 2.835

9.  Longitudinal-relaxation-enhanced NMR experiments for the study of nucleic acids in solution.

Authors:  Jonathan Farjon; Jérôme Boisbouvier; Paul Schanda; Arthur Pardi; Jean-Pierre Simorre; Bernhard Brutscher
Journal:  J Am Chem Soc       Date:  2009-06-24       Impact factor: 15.419

10.  1H-15N heteronuclear NMR studies of Escherichia coli thioredoxin in samples isotopically labeled by residue type.

Authors:  D M LeMaster; F M Richards
Journal:  Biochemistry       Date:  1985-12-03       Impact factor: 3.162

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  2 in total

1.  CombLabel: rational design of optimized sequence-specific combinatorial labeling schemes. Application to backbone assignment of membrane proteins with low stability.

Authors:  M Yu Myshkin; M A Dubinnyi; D S Kulbatskii; E N Lyukmanova; M P Kirpichnikov; Z O Shenkarev
Journal:  J Biomol NMR       Date:  2019-07-08       Impact factor: 2.835

2.  Amino-acid selective isotope labeling enables simultaneous overlapping signal decomposition and information extraction from NMR spectra.

Authors:  Takuma Kasai; Shunsuke Ono; Seizo Koshiba; Masayuki Yamamoto; Toshiyuki Tanaka; Shiro Ikeda; Takanori Kigawa
Journal:  J Biomol NMR       Date:  2020-01-30       Impact factor: 2.835

  2 in total

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