Literature DB >> 12783530

Probing the rhodopsin cavity with reduced retinal models at the CASPT2//CASSCF/AMBER level of theory.

Nicolas Ferré1, Massimo Olivucci.   

Abstract

We show that the ab initio CASPT2//CASSCF strategy previously used to investigate the ground and excited states of the chromophore of the vision receptor rhodopsin (Rh) in vacuo can be successfully implemented in a QM/MM scheme allowing for CASPT2//CASSCF/AMBER geometry optimization and excited state property evaluation in proteins. Two receptor models (Rh-1 and Rh-2) incorporating different reduced chromophores are investigated. It is shown that Rh-2 features a chromophore equilibrium structure with the correct helicity and a lambdamax that is only 52 nm blue-shifted from the observed value. This result should open the way to a qualitatively correct ab initio QM/MM modeling of the early excited state transient species involved in the vision process.

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Year:  2003        PMID: 12783530     DOI: 10.1021/ja035087d

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  21 in total

1.  QM/MM study of energy storage and molecular rearrangements due to the primary event in vision.

Authors:  Jose A Gascon; Victor S Batista
Journal:  Biophys J       Date:  2004-08-31       Impact factor: 4.033

2.  Bond torsion affects the product distribution in the photoreaction of retinal model chromophores.

Authors:  Oliver Weingart; Igor Schapiro; Volker Buss
Journal:  J Mol Model       Date:  2005-11-10       Impact factor: 1.810

3.  Possible role of the 11-cis-retinyl conformation in controlling the dual decay processes of excited rhodopsin.

Authors:  Robert S H Liu; George S Hammond; Taraneh Mirzadegan
Journal:  Proc Natl Acad Sci U S A       Date:  2005-07-25       Impact factor: 11.205

Review 4.  Quantum mechanical/molecular mechanical studies on spectral tuning mechanisms of visual pigments and other photoactive proteins.

Authors:  Ahmet Altun; Shozo Yokoyama; Keiji Morokuma
Journal:  Photochem Photobiol       Date:  2008-03-07       Impact factor: 3.421

5.  Photochemical reaction dynamics of the primary event of vision studied by means of a hybrid molecular simulation.

Authors:  Shigehiko Hayashi; Emad Tajkhorshid; Klaus Schulten
Journal:  Biophys J       Date:  2009-01       Impact factor: 4.033

6.  Fluorescence Enhancement of a Microbial Rhodopsin via Electronic Reprogramming.

Authors:  María Del Carmen Marín; Damianos Agathangelou; Yoelvis Orozco-Gonzalez; Alessio Valentini; Yoshitaka Kato; Rei Abe-Yoshizumi; Hideki Kandori; Ahreum Choi; Kwang-Hwan Jung; Stefan Haacke; Massimo Olivucci
Journal:  J Am Chem Soc       Date:  2018-12-28       Impact factor: 15.419

7.  Conical intersections in solution: formulation, algorithm, and implementation with combined quantum mechanics/molecular mechanics method.

Authors:  Ganglong Cui; Weitao Yang
Journal:  J Chem Phys       Date:  2011-05-28       Impact factor: 3.488

8.  4-hydroxyphenylpyruvate dioxygenase catalysis: identification of catalytic residues and production of a hydroxylated intermediate shared with a structurally unrelated enzyme.

Authors:  Corinne Raspail; Matthieu Graindorge; Yohann Moreau; Serge Crouzy; Bertrand Lefèbvre; Adeline Y Robin; Renaud Dumas; Michel Matringe
Journal:  J Biol Chem       Date:  2011-05-25       Impact factor: 5.157

9.  Tracking the excited-state time evolution of the visual pigment with multiconfigurational quantum chemistry.

Authors:  Luis Manuel Frutos; Tadeusz Andruniów; Fabrizio Santoro; Nicolas Ferré; Massimo Olivucci
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-30       Impact factor: 11.205

10.  Spectral tuning in visual pigments: an ONIOM(QM:MM) study on bovine rhodopsin and its mutants.

Authors:  Ahmet Altun; Shozo Yokoyama; Keiji Morokuma
Journal:  J Phys Chem B       Date:  2008-05-13       Impact factor: 2.991

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