Literature DB >> 23099262

Hydrogen-exchange mass spectrometry for the study of intrinsic disorder in proteins.

Deepa Balasubramaniam1, Elizabeth A Komives.   

Abstract

Amide hydrogen/deuterium exchange detected by mass spectrometry (HXMS) is seeing wider use for the identification of intrinsically disordered parts of proteins. In this review, we discuss examples of how discovery of intrinsically disordered regions and their removal can aid in structure determination, biopharmaceutical quality control, the characterization of how post-translational modifications affect weak structuring of disordered regions, the study of coupled folding and binding, and the characterization of amyloid formation. This article is part of a Special Issue entitled: Mass spectrometry in structural biology.
Copyright © 2012 Elsevier B.V. All rights reserved.

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Year:  2012        PMID: 23099262      PMCID: PMC3600394          DOI: 10.1016/j.bbapap.2012.10.009

Source DB:  PubMed          Journal:  Biochim Biophys Acta        ISSN: 0006-3002


  70 in total

1.  Reduced amino acid alphabet is sufficient to accurately recognize intrinsically disordered protein.

Authors:  Edward A Weathers; Michael E Paulaitis; Thomas B Woolf; Jan H Hoh
Journal:  FEBS Lett       Date:  2004-10-22       Impact factor: 4.124

Review 2.  Rel/NF-kappa B/I kappa B family: intimate tales of association and dissociation.

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Journal:  Genes Dev       Date:  1995-11-15       Impact factor: 11.361

3.  Mass spectrometric determination of isotopic exchange rates of amide hydrogens located on the surfaces of proteins.

Authors:  K Dharmasiri; D L Smith
Journal:  Anal Chem       Date:  1996-07-15       Impact factor: 6.986

4.  Structural studies of p21Waf1/Cip1/Sdi1 in the free and Cdk2-bound state: conformational disorder mediates binding diversity.

Authors:  R W Kriwacki; L Hengst; L Tennant; S I Reed; P E Wright
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-15       Impact factor: 11.205

5.  Spatially resolved protein hydrogen exchange measured by matrix-assisted laser desorption ionization in-source decay.

Authors:  Kasper D Rand; Nicolai Bache; Morten M Nedertoft; Thomas J D Jørgensen
Journal:  Anal Chem       Date:  2011-11-09       Impact factor: 6.986

6.  Purification and structural studies of a major scrapie prion protein.

Authors:  S B Prusiner; D F Groth; D C Bolton; S B Kent; L E Hood
Journal:  Cell       Date:  1984-08       Impact factor: 41.582

7.  An experimental procedure for increasing the structural resolution of chemical hydrogen-exchange measurements on proteins: application to ribonuclease S peptide.

Authors:  J J Rosa; F M Richards
Journal:  J Mol Biol       Date:  1979-09-25       Impact factor: 5.469

8.  Probing the instabilities in the dynamics of helical fragments from mouse PrPC.

Authors:  Ruxandra I Dima; D Thirumalai
Journal:  Proc Natl Acad Sci U S A       Date:  2004-10-19       Impact factor: 11.205

9.  Primary structure effects on peptide group hydrogen exchange.

Authors:  Y Bai; J S Milne; L Mayne; S W Englander
Journal:  Proteins       Date:  1993-09

10.  Determination of amide hydrogen exchange by mass spectrometry: a new tool for protein structure elucidation.

Authors:  Z Zhang; D L Smith
Journal:  Protein Sci       Date:  1993-04       Impact factor: 6.725

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  31 in total

Review 1.  Hydrogen-deuterium exchange mass spectrometry reveals folding and allostery in protein-protein interactions.

Authors:  Cesar A Ramirez-Sarmiento; Elizabeth A Komives
Journal:  Methods       Date:  2018-04-06       Impact factor: 3.608

2.  Probing Protein-Membrane Interactions and Dynamics Using Hydrogen-Deuterium Exchange Mass Spectrometry (HDX-MS).

Authors:  Jordan T B Stariha; Reece M Hoffmann; David J Hamelin; John E Burke
Journal:  Methods Mol Biol       Date:  2021

3.  Dual protease type XIII/pepsin digestion offers superior resolution and overlap for the analysis of histone tails by HX-MS.

Authors:  James Mullahoo; Terry Zhang; Karl Clauser; Steven A Carr; Jacob D Jaffe; Malvina Papanastasiou
Journal:  Methods       Date:  2020-01-28       Impact factor: 3.608

4.  Conformational modulation of the farnesoid X receptor by prenylflavonoids: Insights from hydrogen deuterium exchange mass spectrometry (HDX-MS), fluorescence titration and molecular docking studies.

Authors:  Liping Yang; David Broderick; Yan Campbell; Adrian F Gombart; Jan F Stevens; Yuan Jiang; Victor L Hsu; William H Bisson; Claudia S Maier
Journal:  Biochim Biophys Acta       Date:  2016-09-03

5.  A General Method for Predicting Amino Acid Residues Experiencing Hydrogen Exchange.

Authors:  Boshen Wang; Alan Perez-Rathke; Renhao Li; Jie Liang
Journal:  IEEE EMBS Int Conf Biomed Health Inform       Date:  2018-04-09

Review 6.  The roles of conditional disorder in redox proteins.

Authors:  Dana Reichmann; Ursula Jakob
Journal:  Curr Opin Struct Biol       Date:  2013-03-13       Impact factor: 6.809

7.  Structural insights into fibrinogen dynamics using amide hydrogen/deuterium exchange mass spectrometry.

Authors:  James J Marsh; Henry S Guan; Sheng Li; Peter G Chiles; Danny Tran; Timothy A Morris
Journal:  Biochemistry       Date:  2013-08-02       Impact factor: 3.162

8.  Isotope Labeling of Biomolecules: Structural Analysis of Viruses by HDX-MS.

Authors:  Miklos Guttman; Kelly K Lee
Journal:  Methods Enzymol       Date:  2015-07-04       Impact factor: 1.600

9.  A critical evaluation of in silico methods for detection of membrane protein intrinsic disorder.

Authors:  Edward E Pryor; Michael C Wiener
Journal:  Biophys J       Date:  2014-04-15       Impact factor: 4.033

10.  MRI Is a DNA Damage Response Adaptor during Classical Non-homologous End Joining.

Authors:  Putzer J Hung; Britney Johnson; Bo-Ruei Chen; Andrea K Byrum; Andrea L Bredemeyer; William T Yewdell; Tanya E Johnson; Brian J Lee; Shruthi Deivasigamani; Issa Hindi; Parmeshwar Amatya; Michael L Gross; Tanya T Paull; David J Pisapia; Jayanta Chaudhuri; John J H Petrini; Nima Mosammaparast; Gaya K Amarasinghe; Shan Zha; Jessica K Tyler; Barry P Sleckman
Journal:  Mol Cell       Date:  2018-07-12       Impact factor: 17.970

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