Literature DB >> 28717997

An enhanced sensitivity methyl 1H triple-quantum pulse scheme for measuring diffusion constants of macromolecules.

Rui Huang1, Jacob P Brady1, Ashok Sekhar1, Tairan Yuwen1, Lewis E Kay2,3.   

Abstract

We present a pulse scheme that exploits methyl 1H triple-quantum (TQ) coherences for the measurement of diffusion rates of slowly diffusing molecules in solution. It is based on the well-known stimulated echo experiment, with encoding and decoding of TQ coherences. The size of quantifiable diffusion coefficients is thus lowered by an order of magnitude with respect to single-quantum (SQ) approaches. Notably, the sensitivity of the scheme is high, approximately ¾ that of the corresponding single quantum experiment, neglecting relaxation losses, and on the order of a factor of 4 more sensitive than a previously published sequence for AX3 spin systems (Zheng et al. in JMR 198:271-274, 2009) for molecules that are only 13C labeled at the methyl carbon position. Diffusion coefficients measured from TQ- and SQ-based experiments recorded on a range of protein samples are in excellent agreement. We present an application of this technique to the study of phase-separated proteins where protein concentrations in the condensed phase can exceed 400 mg/mL, diffusion coefficients can be as low as ~10-9 cm2s-1 and traditional SQ experiments fail.

Entities:  

Keywords:  Ddx4; Diffusion; Methyl groups; NMR; Triple-quantum

Mesh:

Substances:

Year:  2017        PMID: 28717997     DOI: 10.1007/s10858-017-0122-9

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  18 in total

1.  A 2D ¹³C-CEST experiment for studying slowly exchanging protein systems using methyl probes: an application to protein folding.

Authors:  Guillaume Bouvignies; Lewis E Kay
Journal:  J Biomol NMR       Date:  2012-06-12       Impact factor: 2.835

2.  Chi1 torsion angle dynamics in proteins from dipolar couplings.

Authors:  A Mittermaier; L E Kay
Journal:  J Am Chem Soc       Date:  2001-07-18       Impact factor: 15.419

3.  Diffusion coefficients of biomolecules using long-lived spin states.

Authors:  Puneet Ahuja; Riddhiman Sarkar; Paul R Vasos; Geoffrey Bodenhausen
Journal:  J Am Chem Soc       Date:  2009-06-10       Impact factor: 15.419

4.  Unfolding the mechanism of the AAA+ unfoldase VAT by a combined cryo-EM, solution NMR study.

Authors:  Rui Huang; Zev A Ripstein; Rafal Augustyniak; Michal Lazniewski; Krzysztof Ginalski; Lewis E Kay; John L Rubinstein
Journal:  Proc Natl Acad Sci U S A       Date:  2016-07-11       Impact factor: 11.205

5.  Translational diffusion of macromolecular assemblies measured using transverse-relaxation-optimized pulsed field gradient NMR.

Authors:  Reto Horst; Arthur L Horwich; Kurt Wüthrich
Journal:  J Am Chem Soc       Date:  2011-09-26       Impact factor: 15.419

6.  3D DOSY-TROSY to determine the translational diffusion coefficient of large protein complexes.

Authors:  Tatiana Didenko; Rolf Boelens; Stefan G D Rüdiger
Journal:  Protein Eng Des Sel       Date:  2010-11-08       Impact factor: 1.650

7.  Protein conformational changes studied by diffusion NMR spectroscopy: application to helix-loop-helix calcium binding proteins.

Authors:  Aalim M Weljie; Aaron P Yamniuk; Hidenori Yoshino; Yoshinobu Izumi; Hans J Vogel
Journal:  Protein Sci       Date:  2003-02       Impact factor: 6.725

8.  Measuring protein self-association using pulsed-field-gradient NMR spectroscopy: application to myosin light chain 2.

Authors:  A J Dingley; J P Mackay; B E Chapman; M B Morris; P W Kuchel; B D Hambly; G F King
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

9.  MQ-PGSTE: a new multi-quantum STE-based PGSE NMR sequence.

Authors:  Gang Zheng; Allan M Torres; William S Price
Journal:  J Magn Reson       Date:  2009-03-17       Impact factor: 2.229

10.  Phase transition of a disordered nuage protein generates environmentally responsive membraneless organelles.

Authors:  Timothy J Nott; Evangelia Petsalaki; Patrick Farber; Dylan Jervis; Eden Fussner; Anne Plochowietz; Timothy D Craggs; David P Bazett-Jones; Tony Pawson; Julie D Forman-Kay; Andrew J Baldwin
Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

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  3 in total

1.  INDIANA: An in-cell diffusion method to characterize the size, abundance and permeability of cells.

Authors:  Gogulan Karunanithy; Richard J Wheeler; Louise R Tear; Nicola J Farrer; Stephen Faulkner; Andrew J Baldwin
Journal:  J Magn Reson       Date:  2019-01-06       Impact factor: 2.229

2.  Protein structural changes characterized by high-pressure, pulsed field gradient diffusion NMR spectroscopy.

Authors:  Venkatraman Ramanujam; T Reid Alderson; Iva Pritišanac; Jinfa Ying; Ad Bax
Journal:  J Magn Reson       Date:  2020-02-19       Impact factor: 2.229

Review 3.  Methyl-Based NMR Spectroscopy Methods for Uncovering Structural Dynamics in Large Proteins and Protein Complexes.

Authors:  Zachary K Boswell; Michael P Latham
Journal:  Biochemistry       Date:  2018-10-26       Impact factor: 3.162

  3 in total

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