Literature DB >> 23813793

Impact of hydrostatic pressure on an intrinsically disordered protein: a high-pressure NMR study of α-synuclein.

Julien Roche1, Jinfa Ying, Alexander S Maltsev, Ad Bax.   

Abstract

The impact of pressure on the backbone (15) N, (1) H and (13) C chemical shifts in N-terminally acetylated α-synuclein has been evaluated over a pressure range 1-2500 bar. Even while the chemical shifts fall very close to random coil values, as expected for an intrinsically disordered protein, substantial deviations in the pressure dependence of the chemical shifts are seen relative to those in short model peptides. In particular, the nonlinear pressure response of the (1) H(N) chemical shifts, which commonly is associated with the presence of low-lying "excited states", is much larger in α-synuclein than in model peptides. The linear pressure response of (1) H(N) chemical shift, commonly linked to H-bond length change, correlates well with those in short model peptides, and is found to be anticorrelated with its temperature dependence. The pressure dependence of (13) C chemical shifts shows remarkably large variations, even when accounting for residue type, and do not point to a clear shift in population between different regions of the Ramachandran map. However, a nearly universal decrease in (3) JHN-Hα by 0.22 ± 0.05 Hz suggests a slight increase in population of the polyproline II region at 2500 bar. The first six residues of N-terminally acetylated synuclein show a transient of approximately 15% population of α-helix, which slightly diminishes at 2500 bar. The backbone dynamics of the protein is not visibly affected beyond the effect of slight increase in water viscosity at 2500 bar.
Copyright © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  15N relaxation; intrinsically disordered proteins; nonuniform sampling; random coils; triple resonance

Mesh:

Substances:

Year:  2013        PMID: 23813793      PMCID: PMC3874805          DOI: 10.1002/cbic.201300244

Source DB:  PubMed          Journal:  Chembiochem        ISSN: 1439-4227            Impact factor:   3.164


  48 in total

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Authors:  S Sareth; H Li; H Yamada; C K Woodward; K Akasaka
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2.  Close identity of a pressure-stabilized intermediate with a kinetic intermediate in protein folding.

Authors:  Ryo Kitahara; Kazuyuki Akasaka
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-10       Impact factor: 11.205

3.  A structural model for unfolded proteins from residual dipolar couplings and small-angle x-ray scattering.

Authors:  Pau Bernadó; Laurence Blanchard; Peter Timmins; Dominique Marion; Rob W H Ruigrok; Martin Blackledge
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-11       Impact factor: 11.205

4.  Structure and dynamics of micelle-bound human alpha-synuclein.

Authors:  Tobias S Ulmer; Ad Bax; Nelson B Cole; Robert L Nussbaum
Journal:  J Biol Chem       Date:  2004-12-22       Impact factor: 5.157

5.  Possible mechanism underlying high-pressure unfolding of proteins: formation of a short-period high-density hydration shell.

Authors:  Tomonari Sumi; Hideo Sekino
Journal:  Phys Chem Chem Phys       Date:  2011-08-03       Impact factor: 3.676

6.  Mapping the potential energy landscape of intrinsically disordered proteins at amino acid resolution.

Authors:  Valéry Ozenne; Robert Schneider; Mingxi Yao; Jie-rong Huang; Loïc Salmon; Markus Zweckstetter; Malene Ringkjøbing Jensen; Martin Blackledge
Journal:  J Am Chem Soc       Date:  2012-08-28       Impact factor: 15.419

7.  Pressure response of protein backbone structure. Pressure-induced amide 15N chemical shifts in BPTI.

Authors:  K Akasaka; H Li; H Yamada; R Li; T Thoresen; C K Woodward
Journal:  Protein Sci       Date:  1999-10       Impact factor: 6.725

8.  Two folded conformers of ubiquitin revealed by high-pressure NMR.

Authors:  R Kitahara; H Yamada; K Akasaka
Journal:  Biochemistry       Date:  2001-11-13       Impact factor: 3.162

9.  Intrinsic propensities of amino acid residues in GxG peptides inferred from amide I' band profiles and NMR scalar coupling constants.

Authors:  Andrew Hagarman; Thomas J Measey; Daniel Mathieu; Harald Schwalbe; Reinhard Schweitzer-Stenner
Journal:  J Am Chem Soc       Date:  2010-01-20       Impact factor: 15.419

Review 10.  Intrinsically disordered proteins in human diseases: introducing the D2 concept.

Authors:  Vladimir N Uversky; Christopher J Oldfield; A Keith Dunker
Journal:  Annu Rev Biophys       Date:  2008       Impact factor: 12.981

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  17 in total

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Authors:  Akihiro Maeno; Daniel Sindhikara; Fumio Hirata; Renee Otten; Frederick W Dahlquist; Shigeyuki Yokoyama; Kazuyuki Akasaka; Frans A A Mulder; Ryo Kitahara
Journal:  Biophys J       Date:  2015-01-06       Impact factor: 4.033

Review 2.  Lessons from pressure denaturation of proteins.

Authors:  Julien Roche; Catherine A Royer
Journal:  J R Soc Interface       Date:  2018-10-03       Impact factor: 4.118

3.  Pressure dependence of side chain 13C chemical shifts in model peptides Ac-Gly-Gly-Xxx-Ala-NH2.

Authors:  Markus Beck Erlach; Joerg Koehler; Edson Crusca; Claudia E Munte; Masatsune Kainosho; Werner Kremer; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2017-09-14       Impact factor: 2.835

4.  Prediction of nearest neighbor effects on backbone torsion angles and NMR scalar coupling constants in disordered proteins.

Authors:  Yang Shen; Julien Roche; Alexander Grishaev; Ad Bax
Journal:  Protein Sci       Date:  2017-10-25       Impact factor: 6.725

5.  Propensity for cis-Proline Formation in Unfolded Proteins.

Authors:  T Reid Alderson; Jung Ho Lee; Cyril Charlier; Jinfa Ying; Ad Bax
Journal:  Chembiochem       Date:  2017-11-16       Impact factor: 3.164

6.  Pressure-induced structural transition of mature HIV-1 protease from a combined NMR/MD simulation approach.

Authors:  Julien Roche; John M Louis; Ad Bax; Robert B Best
Journal:  Proteins       Date:  2015-10-16

7.  Pressure dependence of backbone chemical shifts in the model peptides Ac-Gly-Gly-Xxx-Ala-NH2.

Authors:  Markus Beck Erlach; Joerg Koehler; Edson Crusca; Werner Kremer; Claudia E Munte; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2016-06-22       Impact factor: 2.835

Review 8.  NMR of Macromolecular Assemblies and Machines at 1 GHz and Beyond: New Transformative Opportunities for Molecular Structural Biology.

Authors:  Caitlin M Quinn; Mingzhang Wang; Tatyana Polenova
Journal:  Methods Mol Biol       Date:  2018

9.  Conformational recognition of an intrinsically disordered protein.

Authors:  James M Krieger; Giuliana Fusco; Marc Lewitzky; Philip C Simister; Jan Marchant; Carlo Camilloni; Stephan M Feller; Alfonso De Simone
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10.  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

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