Literature DB >> 30366154

Characterization of low-lying excited states of proteins by high-pressure NMR.

Mike P Williamson1, Ryo Kitahara2.   

Abstract

Hydrostatic pressure alters the free energy of proteins by a few kJ mol-1, with the amount depending on their partial molar volumes. Because the folded ground state of a protein contains cavities, it is always a state of large partial molar volume. Therefore pressure always destabilises the ground state and increases the population of partially and completely unfolded states. This is a mild and reversible conformational change, which allows the study of excited states under thermodynamic equilibrium conditions. Many of the excited states studied in this way are functionally relevant; they also seem to be very similar to kinetic folding intermediates, thus suggesting that evolution has made use of the 'natural' dynamic energy landscape of the protein fold and sculpted it to optimise function. This includes features such as ligand binding, structural change during the catalytic cycle, and dynamic allostery.
Copyright © 2018 Elsevier B.V. All rights reserved.

Keywords:  Allostery; Cavity; Energy landscape; NMR; Pressure; Volume

Mesh:

Substances:

Year:  2018        PMID: 30366154     DOI: 10.1016/j.bbapap.2018.10.014

Source DB:  PubMed          Journal:  Biochim Biophys Acta Proteins Proteom        ISSN: 1570-9639            Impact factor:   3.036


  10 in total

1.  How internal cavities destabilize a protein.

Authors:  Mengjun Xue; Takuro Wakamoto; Camilla Kejlberg; Yuichi Yoshimura; Tania Aaquist Nielsen; Michael Wulff Risør; Kristian Wejse Sanggaard; Ryo Kitahara; Frans A A Mulder
Journal:  Proc Natl Acad Sci U S A       Date:  2019-09-30       Impact factor: 11.205

2.  Paramagnetic relaxation enhancement-assisted structural characterization of a partially disordered conformation of ubiquitin.

Authors:  Takuro Wakamoto; Teppei Ikeya; Soichiro Kitazawa; Nicola J Baxter; Mike P Williamson; Ryo Kitahara
Journal:  Protein Sci       Date:  2019-11       Impact factor: 6.725

3.  High hydrostatic pressure induces slow contraction in mouse cardiomyocytes.

Authors:  Yohei Yamaguchi; Masayoshi Nishiyama; Hiroaki Kai; Toshiyuki Kaneko; Keiko Kaihara; Gentaro Iribe; Akira Takai; Keiji Naruse; Masatoshi Morimatsu
Journal:  Biophys J       Date:  2022-07-14       Impact factor: 3.699

Review 4.  Recent advances suggest increased influence of selective pressure in allostery.

Authors:  Archana S Bhat; Richard Dustin Schaeffer; Lisa Kinch; Kirill E Medvedev; Nick V Grishin
Journal:  Curr Opin Struct Biol       Date:  2020-04-14       Impact factor: 6.809

5.  Volume and compressibility differences between protein conformations revealed by high-pressure NMR.

Authors:  Xingjian Xu; Donald Gagné; James M Aramini; Kevin H Gardner
Journal:  Biophys J       Date:  2021-01-30       Impact factor: 4.033

6.  Pressure accelerates the circadian clock of cyanobacteria.

Authors:  Ryo Kitahara; Katsuaki Oyama; Takahiro Kawamura; Keita Mitsuhashi; Soichiro Kitazawa; Kazuhiro Yasunaga; Natsuno Sagara; Megumi Fujimoto; Kazuki Terauchi
Journal:  Sci Rep       Date:  2019-08-27       Impact factor: 4.379

7.  Conformational exchange in the potassium channel blocker ShK.

Authors:  Naoto Iwakawa; Nicola J Baxter; Dorothy C C Wai; Nicholas J Fowler; Rodrigo A V Morales; Kenji Sugase; Raymond S Norton; Mike P Williamson
Journal:  Sci Rep       Date:  2019-12-17       Impact factor: 4.379

Review 8.  Integrated Computational Approaches and Tools forAllosteric Drug Discovery.

Authors:  Olivier Sheik Amamuddy; Wayde Veldman; Colleen Manyumwa; Afrah Khairallah; Steve Agajanian; Odeyemi Oluyemi; Gennady Verkhivker; Ozlem Tastan Bishop
Journal:  Int J Mol Sci       Date:  2020-01-28       Impact factor: 5.923

9.  Equilibria between conformational states of the Ras oncogene protein revealed by high pressure crystallography.

Authors:  Eric Girard; Pedro Lopes; Michael Spoerner; Anne-Claire Dhaussy; Thierry Prangé; Hans Robert Kalbitzer; Nathalie Colloc'h
Journal:  Chem Sci       Date:  2022-01-13       Impact factor: 9.825

Review 10.  Allosteric Regulation at the Crossroads of New Technologies: Multiscale Modeling, Networks, and Machine Learning.

Authors:  Gennady M Verkhivker; Steve Agajanian; Guang Hu; Peng Tao
Journal:  Front Mol Biosci       Date:  2020-07-09
  10 in total

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