Literature DB >> 27653477

Ultraslow Water-Mediated Transmembrane Interactions Regulate the Activation of A2A Adenosine Receptor.

Yoonji Lee1, Songmi Kim2, Sun Choi3, Changbong Hyeon4.   

Abstract

Water molecules inside a G-protein coupled receptor (GPCR) have recently been spotlighted in a series of crystal structures. To decipher the dynamics and functional roles of internal water molecules in GPCR activity, we studied the A2A adenosine receptor using microsecond molecular-dynamics simulations. Our study finds that the amount of water flux across the transmembrane (TM) domain varies depending on the receptor state, and that the water molecules of the TM channel in the active state flow three times more slowly than those in the inactive state. Depending on the location in solvent-protein interface as well as the receptor state, the average residence time of water in each residue varies from ∼O(10(2)) ps to ∼O(10(2)) ns. Especially, water molecules, exhibiting ultraslow relaxation (∼O(10(2)) ns) in the active state, are found around the microswitch residues that are considered activity hotspots for GPCR function. A continuous allosteric network spanning the TM domain, arising from water-mediated contacts, is unique in the active state, underscoring the importance of slow water molecules in the activation of GPCRs.
Copyright © 2016 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2016        PMID: 27653477      PMCID: PMC5034350          DOI: 10.1016/j.bpj.2016.08.002

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  70 in total

1.  Biological water at the protein surface: dynamical solvation probed directly with femtosecond resolution.

Authors:  Samir Kumar Pal; Jorge Peon; Ahmed H Zewail
Journal:  Proc Natl Acad Sci U S A       Date:  2002-02-12       Impact factor: 11.205

2.  A unified model of protein dynamics.

Authors:  Hans Frauenfelder; Guo Chen; Joel Berendzen; Paul W Fenimore; Helén Jansson; Benjamin H McMahon; Izabela R Stroe; Jan Swenson; Robert D Young
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-27       Impact factor: 11.205

3.  HOLE: a program for the analysis of the pore dimensions of ion channel structural models.

Authors:  O S Smart; J G Neduvelil; X Wang; B A Wallace; M S Sansom
Journal:  J Mol Graph       Date:  1996-12

4.  Agonist dynamics and conformational selection during microsecond simulations of the A(2A) adenosine receptor.

Authors:  Ji Young Lee; Edward Lyman
Journal:  Biophys J       Date:  2012-05-02       Impact factor: 4.033

5.  Ligand induced change of β2 adrenergic receptor from active to inactive conformation and its implication for the closed/open state of the water channel: insight from molecular dynamics simulation, free energy calculation and Markov state model analysis.

Authors:  Qifeng Bai; Horacio Pérez-Sánchez; Yang Zhang; Yonghua Shao; Danfeng Shi; Huanxiang Liu; Xiaojun Yao
Journal:  Phys Chem Chem Phys       Date:  2014-08-14       Impact factor: 3.676

6.  Water dynamics and dewetting transitions in the small mechanosensitive channel MscS.

Authors:  Andriy Anishkin; Sergei Sukharev
Journal:  Biophys J       Date:  2004-05       Impact factor: 4.033

Review 7.  The structure and function of G-protein-coupled receptors.

Authors:  Daniel M Rosenbaum; Søren G F Rasmussen; Brian K Kobilka
Journal:  Nature       Date:  2009-05-21       Impact factor: 49.962

8.  Water-Mediated Energy Dynamics in a Homodimeric Hemoglobin.

Authors:  David M Leitner
Journal:  J Phys Chem B       Date:  2016-04-22       Impact factor: 2.991

9.  Buried ionizable networks are an ancient hallmark of G protein-coupled receptor activation.

Authors:  Daniel G Isom; Henrik G Dohlman
Journal:  Proc Natl Acad Sci U S A       Date:  2015-04-20       Impact factor: 11.205

10.  Crystal structure of the β2 adrenergic receptor-Gs protein complex.

Authors:  Søren G F Rasmussen; Brian T DeVree; Yaozhong Zou; Andrew C Kruse; Ka Young Chung; Tong Sun Kobilka; Foon Sun Thian; Pil Seok Chae; Els Pardon; Diane Calinski; Jesper M Mathiesen; Syed T A Shah; Joseph A Lyons; Martin Caffrey; Samuel H Gellman; Jan Steyaert; Georgios Skiniotis; William I Weis; Roger K Sunahara; Brian K Kobilka
Journal:  Nature       Date:  2011-07-19       Impact factor: 49.962

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  5 in total

1.  The origin and impact of bound water around intrinsically disordered proteins.

Authors:  Korey M Reid; Abhishek K Singh; Chowdhury R Bikash; Jessica Wei; Yftah Tal-Gan; Nguyen Q Vinh; David M Leitner
Journal:  Biophys J       Date:  2022-01-21       Impact factor: 4.033

2.  Gorge Motions of Acetylcholinesterase Revealed by Microsecond Molecular Dynamics Simulations.

Authors:  Shanmei Cheng; Wanling Song; Xiaojing Yuan; Yechun Xu
Journal:  Sci Rep       Date:  2017-06-12       Impact factor: 4.379

3.  Implications for human odor sensing revealed from the statistics of odorant-receptor interactions.

Authors:  Ji Hyun Bak; Seogjoo J Jang; Changbong Hyeon
Journal:  PLoS Comput Biol       Date:  2018-05-21       Impact factor: 4.475

Review 4.  Signaling within Allosteric Machines: Signal Transmission Pathways Inside G Protein-Coupled Receptors.

Authors:  Damian Bartuzi; Agnieszka A Kaczor; Dariusz Matosiuk
Journal:  Molecules       Date:  2017-07-15       Impact factor: 4.411

5.  A Statistical Journey through the Topological Determinants of the β2 Adrenergic Receptor Dynamics.

Authors:  Luisa Di Paola; Humanath Poudel; Mauro Parise; Alessandro Giuliani; David M Leitner
Journal:  Entropy (Basel)       Date:  2022-07-19       Impact factor: 2.738

  5 in total

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