Literature DB >> 28643003

Recent developments in solution nuclear magnetic resonance (NMR)-based molecular biology.

Joshua J Ziarek1, Diego Baptista1, Gerhard Wagner2.   

Abstract

Visualizing post-translational modifications, conformations, and interaction surfaces of protein structures at atomic resolution underpins the development of novel therapeutics to combat disease. As computational resources expand, in silico calculations coupled with experimentally derived structures and functional assays have led to an explosion in structure-based drug design (SBDD) with several compounds in clinical trials. It is increasingly clear that "hidden" transition-state structures along activation trajectories can be harnessed to develop novel classes of allosteric inhibitors. The goal of this mini-review is to empower the clinical researcher with a general knowledge of the strengths and weaknesses of nuclear magnetic resonance (NMR) spectroscopy in molecular medicine. Although NMR can determine protein structures at atomic resolution, its unrivaled strength lies in sensing subtle changes in a nuclei's chemical environment as a result of intrinsic conformational dynamics, solution conditions, and binding interactions. These can be recorded at atomic resolution, without explicit structure determination, and then incorporated with static structures or molecular dynamics simulations to produce a complete biological picture.

Entities:  

Keywords:  Conformational dynamics; Integral membrane proteins; Intrinsically disordered proteins; Low-gamma nuclei detection

Mesh:

Year:  2017        PMID: 28643003      PMCID: PMC5742078          DOI: 10.1007/s00109-017-1560-2

Source DB:  PubMed          Journal:  J Mol Med (Berl)        ISSN: 0946-2716            Impact factor:   4.599


  43 in total

1.  NMR analysis of a 900K GroEL GroES complex.

Authors:  Jocelyne Fiaux; Eric B Bertelsen; Arthur L Horwich; Kurt Wüthrich
Journal:  Nature       Date:  2002-07-11       Impact factor: 49.962

Review 2.  NMR methods for the determination of protein-ligand dissociation constants.

Authors:  Lee Fielding
Journal:  Curr Top Med Chem       Date:  2003       Impact factor: 3.295

Review 3.  How many drug targets are there?

Authors:  John P Overington; Bissan Al-Lazikani; Andrew L Hopkins
Journal:  Nat Rev Drug Discov       Date:  2006-12       Impact factor: 84.694

Review 4.  NMR residual dipolar couplings as probes of biomolecular dynamics.

Authors:  Joel R Tolman; Ke Ruan
Journal:  Chem Rev       Date:  2006-05       Impact factor: 60.622

5.  Protein structure determination from NMR chemical shifts.

Authors:  Andrea Cavalli; Xavier Salvatella; Christopher M Dobson; Michele Vendruscolo
Journal:  Proc Natl Acad Sci U S A       Date:  2007-05-29       Impact factor: 11.205

6.  Longitudinal relaxation optimized amide 1H-CEST experiments for studying slow chemical exchange processes in fully protonated proteins.

Authors:  Tairan Yuwen; Lewis E Kay
Journal:  J Biomol NMR       Date:  2017-03-29       Impact factor: 2.835

7.  Aberrant processing of human proislet amyloid polypeptide results in increased amyloid formation.

Authors:  Johan F Paulsson; Gunilla T Westermark
Journal:  Diabetes       Date:  2005-07       Impact factor: 9.461

8.  Prediction and functional analysis of native disorder in proteins from the three kingdoms of life.

Authors:  J J Ward; J S Sodhi; L J McGuffin; B F Buxton; D T Jones
Journal:  J Mol Biol       Date:  2004-03-26       Impact factor: 5.469

9.  Dependence of amino acid side chain 13C shifts on dihedral angle: application to conformational analysis.

Authors:  Robert E London; Brett D Wingad; Geoffrey A Mueller
Journal:  J Am Chem Soc       Date:  2008-07-25       Impact factor: 15.419

10.  CS23D: a web server for rapid protein structure generation using NMR chemical shifts and sequence data.

Authors:  David S Wishart; David Arndt; Mark Berjanskii; Peter Tang; Jianjun Zhou; Guohui Lin
Journal:  Nucleic Acids Res       Date:  2008-05-30       Impact factor: 16.971

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  3 in total

Review 1.  Chemical tools for membrane protein structural biology.

Authors:  Qinghai Zhang; Vadim Cherezov
Journal:  Curr Opin Struct Biol       Date:  2019-07-05       Impact factor: 6.809

Review 2.  Native Mass Spectrometry of Membrane Proteins.

Authors:  James E Keener; Guozhi Zhang; Michael T Marty
Journal:  Anal Chem       Date:  2020-10-28       Impact factor: 6.986

3.  The role of NMR in leveraging dynamics and entropy in drug design.

Authors:  Abhinav Dubey; Koh Takeuchi; Mikhail Reibarkh; Haribabu Arthanari
Journal:  J Biomol NMR       Date:  2020-07-27       Impact factor: 2.835

  3 in total

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