Literature DB >> 17687624

Four-dimensional heteronuclear correlation experiments for chemical shift assignment of solid proteins.

W Trent Franks1, Kathryn D Kloepper, Benjamin J Wylie, Chad M Rienstra.   

Abstract

Chemical shift assignment is the first step in all established protocols for structure determination of uniformly labeled proteins by NMR. The explosive growth in recent years of magic-angle spinning (MAS) solid-state NMR (SSNMR) applications is largely attributable to improved methods for backbone and side-chain chemical shift correlation spectroscopy. However, the techniques developed so far have been applied primarily to proteins in the size range of 5-10 kDa, despite the fact that SSNMR has no inherent molecular weight limits. Rather, the degeneracy inherent to many 2D and 3D SSNMR spectra of larger proteins has prevented complete unambiguous chemical shift assignment. Here we demonstrate the implementation of 4D backbone chemical shift correlation experiments for assignment of solid proteins. The experiments greatly reduce spectral degeneracy at a modest cost in sensitivity, which is accurately described by theory. We consider several possible implementations and investigate the CANCOCX pulse sequence in detail. This experiment involves three cross polarization steps, from H to CA[i], CA[i] to N[i], and N[i] to C'[i-1], followed by a final homonuclear mixing period. With short homonuclear mixing times (<20 ms), backbone correlations are observed with high sensitivity; with longer mixing times (>200 ms), long-range correlations are revealed. For example, a single 4D experiment with 225 ms homonuclear mixing time reveals approximately 200 uniquely resolved medium and long-range correlations in the 56-residue protein GB1. In addition to experimental demonstrations in the 56-residue protein GB1, we present a theoretical analysis of anticipated improvements in resolution for much larger proteins and compare these results in detail with the experiments, finding good agreement between experiment and theory under conditions of stable instrumental performance.

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Year:  2007        PMID: 17687624     DOI: 10.1007/s10858-007-9179-1

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.582


  59 in total

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2.  Probing site-specific conformational distributions in protein folding with solid-state NMR.

Authors:  Robert H Havlin; Robert Tycko
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-17       Impact factor: 11.205

3.  Protein structure determination by high-resolution solid-state NMR spectroscopy: application to microcrystalline ubiquitin.

Authors:  Stephan G Zech; A Joshua Wand; Ann E McDermott
Journal:  J Am Chem Soc       Date:  2005-06-22       Impact factor: 15.419

4.  Selective refocusing pulses in magic-angle spinning NMR: characterization and applications to multi-dimensional protein spectroscopy.

Authors:  Ying Li; Benjamin J Wylie; Chad M Rienstra
Journal:  J Magn Reson       Date:  2006-01-10       Impact factor: 2.229

5.  An improved broadband decoupling sequence for liquid crystals and solids.

Authors:  B M Fung; A K Khitrin; K Ermolaev
Journal:  J Magn Reson       Date:  2000-01       Impact factor: 2.229

6.  Partial NMR assignments for uniformly (13C, 15N)-enriched BPTI in the solid state.

Authors:  A McDermott; T Polenova; A Bockmann; K W Zilm; E K Paulson; R W Martin; G T Montelione; E K Paulsen
Journal:  J Biomol NMR       Date:  2000-03       Impact factor: 2.835

7.  Solid-state magic-angle spinning NMR of outer-membrane protein G from Escherichia coli.

Authors:  Matthias Hiller; Ludwig Krabben; Kutti R Vinothkumar; Federica Castellani; Barth-Jan van Rossum; Werner Kühlbrandt; Hartmut Oschkinat
Journal:  Chembiochem       Date:  2005-09       Impact factor: 3.164

8.  Correlation of structural elements and infectivity of the HET-s prion.

Authors:  Christiane Ritter; Marie-Lise Maddelein; Ansgar B Siemer; Thorsten Lührs; Matthias Ernst; Beat H Meier; Sven J Saupe; Roland Riek
Journal:  Nature       Date:  2005-06-09       Impact factor: 49.962

9.  Diluting abundant spins by isotope edited radio frequency field assisted diffusion.

Authors:  Corey R Morcombe; Vadim Gaponenko; R Andrew Byrd; Kurt W Zilm
Journal:  J Am Chem Soc       Date:  2004-06-16       Impact factor: 15.419

10.  Assignments of carbon NMR resonances for microcrystalline ubiquitin.

Authors:  Tatyana I Igumenova; Ann E McDermott; Kurt W Zilm; Rachel W Martin; Eric K Paulson; A Joshua Wand
Journal:  J Am Chem Soc       Date:  2004-06-02       Impact factor: 15.419

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  37 in total

1.  Solid-state NMR spectroscopy of protein complexes.

Authors:  Shangjin Sun; Yun Han; Sivakumar Paramasivam; Si Yan; Amanda E Siglin; John C Williams; In-Ja L Byeon; Jinwoo Ahn; Angela M Gronenborn; Tatyana Polenova
Journal:  Methods Mol Biol       Date:  2012

2.  VITAL NMR: using chemical shift derived secondary structure information for a limited set of amino acids to assess homology model accuracy.

Authors:  Michael C Brothers; Anna E Nesbitt; Michael J Hallock; Sanjeewa G Rupasinghe; Ming Tang; Jason Harris; Jerome Baudry; Mary A Schuler; Chad M Rienstra
Journal:  J Biomol NMR       Date:  2011-11-03       Impact factor: 2.835

3.  Backbone assignment of perdeuterated proteins using long-range H/C-dipolar transfers.

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Journal:  J Biomol NMR       Date:  2011-12-14       Impact factor: 2.835

Review 4.  Structure determination of membrane proteins in five easy pieces.

Authors:  Francesca M Marassi; Bibhuti B Das; George J Lu; Henry J Nothnagel; Sang Ho Park; Woo Sung Son; Ye Tian; Stanley J Opella
Journal:  Methods       Date:  2011-09-20       Impact factor: 3.608

5.  Dual acquisition magic-angle spinning solid-state NMR-spectroscopy: simultaneous acquisition of multidimensional spectra of biomacromolecules.

Authors:  T Gopinath; Gianluigi Veglia
Journal:  Angew Chem Int Ed Engl       Date:  2012-02-06       Impact factor: 15.336

6.  Hybridization of TEDOR and NCX MAS solid-state NMR experiments for simultaneous acquisition of heteronuclear correlation spectra and distance measurements.

Authors:  T Gopinath; Songlin Wang; John Lee; Hideki Aihara; Gianluigi Veglia
Journal:  J Biomol NMR       Date:  2019-02-25       Impact factor: 2.835

7.  Transmembrane allosteric coupling of the gates in a potassium channel.

Authors:  Benjamin J Wylie; Manasi P Bhate; Ann E McDermott
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-16       Impact factor: 11.205

8.  A time-saving strategy for MAS NMR spectroscopy by combining nonuniform sampling and paramagnetic relaxation assisted condensed data collection.

Authors:  Shangjin Sun; Si Yan; Changmiao Guo; Mingyue Li; Jeffrey C Hoch; John C Williams; Tatyana Polenova
Journal:  J Phys Chem B       Date:  2012-11-12       Impact factor: 2.991

9.  Solid-state NMR spectroscopy reveals that water is nonessential to the core structure of alpha-synuclein fibrils.

Authors:  Kathryn D Kloepper; Kevin L Hartman; Daniel T Ladror; Chad M Rienstra
Journal:  J Phys Chem B       Date:  2007-11-07       Impact factor: 2.991

10.  Combination of ¹⁵N reverse labeling and afterglow spectroscopy for assigning membrane protein spectra by magic-angle-spinning solid-state NMR: application to the multidrug resistance protein EmrE.

Authors:  James R Banigan; Anindita Gayen; Nathaniel J Traaseth
Journal:  J Biomol NMR       Date:  2013-03-29       Impact factor: 2.835

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