Literature DB >> 19809672

Acceleration of the Z to E photoisomerization of penta-2,4-dieniminium by hydrogen out-of-plane motion: theoretical study on a model system of retinal protonated Schiff base.

Masato Sumita1, Mikhail N Ryazantsev, Kazuya Saito.   

Abstract

We report the result of comparison between two reaction coordinates [on the potential energy surface of the first excited state (S(1))] produced by CASSCF and these energies recalculated by MRMP2 in the Z to E photoisomerization of penta-2,4-dieniminium (PDI) as the minimal model of the retinal protonated Schiff base (RPSB). One coordinate is the S(1) state minimum-energy-path (MEP) in mass-weighted coordinates from the S(1) vertically excited point, where a strong hydrogen-out-of plane (HOOP) motion is not exhibited. The energy profile of the S(1) MEP at the MRMP2//CASSCF level shows a barrier for the rotation around the reactive C-C and hits the S(1)/S(0) degeneracy space where the central C-C-C-C dihedral angle is distorted by 65 degrees . The other coordinate is an S(1) coordinate obtained by the relaxed scan strategy. The relaxed coordinate along the central C-C-C-C dihedral angle, which we call the HOOP coordinate, shows strong HOOP motion. According to the MRMP2//CASSCF calculation, there is no barrier on the HOOP coordinate. Furthermore, the S(1) to S(0) transition may be possible without the large skeletal deformation by HOOP motion because the HOOP coordinate encounters the S(1)/S(0) degeneracy space where the central C-C-C-C dihedral angle is distorted by only 40 degrees . Consequently, if PDI is a suitable model molecule for the RPSB as often assumed, the 11-cis to all-trans photoisomerization is predicted to be accelerated by the HOOP motion.

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Year:  2009        PMID: 19809672     DOI: 10.1039/b900882a

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  5 in total

Review 1.  Quantum Mechanical and Molecular Mechanics Modeling of Membrane-Embedded Rhodopsins.

Authors:  Mikhail N Ryazantsev; Dmitrii M Nikolaev; Andrey V Struts; Michael F Brown
Journal:  J Membr Biol       Date:  2019-09-30       Impact factor: 1.843

2.  QCforever: A Quantum Chemistry Wrapper for Everyone to Use in Black-Box Optimization.

Authors:  Masato Sumita; Kei Terayama; Ryo Tamura; Koji Tsuda
Journal:  J Chem Inf Model       Date:  2022-09-08       Impact factor: 6.162

3.  A voltage-dependent fluorescent indicator for optogenetic applications, archaerhodopsin-3: Structure and optical properties from in silico modeling.

Authors:  Dmitrii M Nikolaev; Anton Emelyanov; Vitaly M Boitsov; Maxim S Panov; Mikhail N Ryazantsev
Journal:  F1000Res       Date:  2017-01-11

4.  A Comparative Study of Modern Homology Modeling Algorithms for Rhodopsin Structure Prediction.

Authors:  Dmitrii M Nikolaev; Andrey A Shtyrov; Maxim S Panov; Adeel Jamal; Oleg B Chakchir; Vladimir A Kochemirovsky; Massimo Olivucci; Mikhail N Ryazantsev
Journal:  ACS Omega       Date:  2018-07-09

5.  Simple Models to Study Spectral Properties of Microbial and Animal Rhodopsins: Evaluation of the Electrostatic Effect of Charged and Polar Residues on the First Absorption Band Maxima.

Authors:  Andrey A Shtyrov; Dmitrii M Nikolaev; Vladimir N Mironov; Andrey V Vasin; Maxim S Panov; Yuri S Tveryanovich; Mikhail N Ryazantsev
Journal:  Int J Mol Sci       Date:  2021-03-16       Impact factor: 5.923

  5 in total

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