Literature DB >> 18585736

Internal hydration increases during activation of the G-protein-coupled receptor rhodopsin.

Alan Grossfield1, Michael C Pitman, Scott E Feller, Olivier Soubias, Klaus Gawrisch.   

Abstract

Rhodopsin, the membrane protein responsible for dim-light vision, until recently was the only G-protein-coupled receptor (GPCR) with a known crystal structure. As a result, there is enormous interest in studying its structure, dynamics, and function. Here we report the results of three all-atom molecular dynamics simulations, each at least 1.5 micros, which predict that substantial changes in internal hydration play a functional role in rhodopsin activation. We confirm with (1)H magic angle spinning NMR that the increased hydration is specific to the metarhodopsin-I intermediate. The internal water molecules interact with several conserved residues, suggesting that changes in internal hydration may be important during the activation of other GPCRs. The results serve to illustrate the synergism of long-time-scale molecular dynamics simulations and NMR in enhancing our understanding of GPCR function.

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Year:  2008        PMID: 18585736      PMCID: PMC3987891          DOI: 10.1016/j.jmb.2008.05.036

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  42 in total

1.  Single-cysteine substitution mutants at amino acid positions 55-75, the sequence connecting the cytoplasmic ends of helices I and II in rhodopsin: reactivity of the sulfhydryl groups and their derivatives identifies a tertiary structure that changes upon light-activation.

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Journal:  Biochemistry       Date:  1999-06-22       Impact factor: 3.162

2.  Movement of retinal along the visual transduction path.

Authors:  B Borhan; M L Souto; H Imai; Y Shichida; K Nakanishi
Journal:  Science       Date:  2000-06-23       Impact factor: 47.728

3.  Historical review: a brief history and personal retrospective of seven-transmembrane receptors.

Authors:  Robert J Lefkowitz
Journal:  Trends Pharmacol Sci       Date:  2004-08       Impact factor: 14.819

4.  Molecular dynamics simulations of retinal in rhodopsin: from the dark-adapted state towards lumirhodopsin.

Authors:  Vincent Lemaître; Philip Yeagle; Anthony Watts
Journal:  Biochemistry       Date:  2005-09-27       Impact factor: 3.162

5.  Local peptide movement in the photoreaction intermediate of rhodopsin.

Authors:  Hitoshi Nakamichi; Tetsuji Okada
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-14       Impact factor: 11.205

6.  How a small change in retinal leads to G-protein activation: initial events suggested by molecular dynamics calculations.

Authors:  Paul S Crozier; Mark J Stevens; Thomas B Woolf
Journal:  Proteins       Date:  2007-02-15

7.  Functional equivalence of metarhodopsin II and the Gt-activating form of photolyzed bovine rhodopsin.

Authors:  J Kibelbek; D C Mitchell; J M Beach; B J Litman
Journal:  Biochemistry       Date:  1991-07-09       Impact factor: 3.162

8.  Photoactivation of rhodopsin causes an increased hydrogen-deuterium exchange of buried peptide groups.

Authors:  P Rath; W J DeGrip; K J Rothschild
Journal:  Biophys J       Date:  1998-01       Impact factor: 4.033

9.  Rhodopsin photoproducts in 2D crystals.

Authors:  Reiner Vogel; Jonathan Ruprecht; Claudio Villa; Thorsten Mielke; Gebhard F X Schertler; Friedrich Siebert
Journal:  J Mol Biol       Date:  2004-04-30       Impact factor: 5.469

10.  A role for direct interactions in the modulation of rhodopsin by omega-3 polyunsaturated lipids.

Authors:  Alan Grossfield; Scott E Feller; Michael C Pitman
Journal:  Proc Natl Acad Sci U S A       Date:  2006-03-17       Impact factor: 11.205

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  61 in total

1.  Quantifying uncertainty and sampling quality in biomolecular simulations.

Authors:  Alan Grossfield; Daniel M Zuckerman
Journal:  Annu Rep Comput Chem       Date:  2009-01-01

2.  Effect of channel mutations on the uptake and release of the retinal ligand in opsin.

Authors:  Ronny Piechnick; Eglof Ritter; Peter W Hildebrand; Oliver P Ernst; Patrick Scheerer; Klaus Peter Hofmann; Martin Heck
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-19       Impact factor: 11.205

3.  Coupling of retinal, protein, and water dynamics in squid rhodopsin.

Authors:  Eduardo Jardón-Valadez; Ana-Nicoleta Bondar; Douglas J Tobias
Journal:  Biophys J       Date:  2010-10-06       Impact factor: 4.033

4.  Dynamics of the internal water molecules in squid rhodopsin.

Authors:  Eduardo Jardón-Valadez; Ana-Nicoleta Bondar; Douglas J Tobias
Journal:  Biophys J       Date:  2009-04-08       Impact factor: 4.033

Review 5.  Microbial and animal rhodopsins: structures, functions, and molecular mechanisms.

Authors:  Oliver P Ernst; David T Lodowski; Marcus Elstner; Peter Hegemann; Leonid S Brown; Hideki Kandori
Journal:  Chem Rev       Date:  2013-12-23       Impact factor: 60.622

6.  Retinal ligand mobility explains internal hydration and reconciles active rhodopsin structures.

Authors:  Nicholas Leioatts; Blake Mertz; Karina Martínez-Mayorga; Tod D Romo; Michael C Pitman; Scott E Feller; Alan Grossfield; Michael F Brown
Journal:  Biochemistry       Date:  2014-01-08       Impact factor: 3.162

7.  Structural and dynamic effects of cholesterol at preferred sites of interaction with rhodopsin identified from microsecond length molecular dynamics simulations.

Authors:  George Khelashvili; Alan Grossfield; Scott E Feller; Michael C Pitman; Harel Weinstein
Journal:  Proteins       Date:  2009-08-01

8.  Characterization of a novel water pocket inside the human Cx26 hemichannel structure.

Authors:  Raul Araya-Secchi; Tomas Perez-Acle; Seung-Gu Kang; Tien Huynh; Alejandro Bernardin; Yerko Escalona; Jose-Antonio Garate; Agustin D Martínez; Isaac E García; Juan C Sáez; Ruhong Zhou
Journal:  Biophys J       Date:  2014-08-05       Impact factor: 4.033

9.  Molecular basis of cannabinoid CB1 receptor coupling to the G protein heterotrimer Gαiβγ: identification of key CB1 contacts with the C-terminal helix α5 of Gαi.

Authors:  Joong-Youn Shim; Kwang H Ahn; Debra A Kendall
Journal:  J Biol Chem       Date:  2013-10-03       Impact factor: 5.157

10.  A role for a specific cholesterol interaction in stabilizing the Apo configuration of the human A(2A) adenosine receptor.

Authors:  Edward Lyman; Chris Higgs; Byungchan Kim; Dmitry Lupyan; John C Shelley; Ramy Farid; Gregory A Voth
Journal:  Structure       Date:  2009-12-09       Impact factor: 5.006

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