Literature DB >> 21401137

Calculation of Raman optical activity spectra of methyl-β-D-glucose incorporating a full molecular dynamics simulation of hydration effects.

James R Cheeseman1, Majeed S Shaik, Paul L A Popelier, Ewan W Blanch.   

Abstract

We report calculations of the Raman and Raman optical activity (ROA) spectra of methyl-β-D-glucose utilizing density functional theory combined with molecular dynamics (MD) simulations to provide an explicit hydration environment. This is the first report of such combination of MD simulations with ROA ab initio calculations. We achieve a significant improvement in accuracy over the more commonly used gas phase and polarizable continuum model (PCM) approaches, resulting in an excellent level of agreement with the experimental spectrum. Modeling the ROA spectra of carbohydrates has until now proven a notoriously difficult challenge due to their sensitivity to the effects of hydration on the molecular vibrations involving each of the chiral centers. The details of the ROA spectrum of methyl-β-D-glucose are found to be highly sensitive to solvation effects, and these are correctly predicted for the first time including those originating from the highly sensitive low frequency vibrational modes. This work shows that a thorough consideration of the role of water is pivotal for understanding the vibrational structure of carbohydrates and presents a new and powerful tool for characterizing carbohydrate structure and conformational dynamics in solution.
© 2011 American Chemical Society

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Year:  2011        PMID: 21401137     DOI: 10.1021/ja110825z

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


  7 in total

1.  Synthesis of a heparin-related GlcN-IdoA sulfation-site variable disaccharide library and analysis by Raman and ROA spectroscopy.

Authors:  Gavin J Miller; Steen U Hansen; Marek Baráth; Christian Johannessen; Ewan W Blanch; Gordon C Jayson; John M Gardiner
Journal:  Carbohydr Res       Date:  2014-07-14       Impact factor: 2.104

2.  Secondary Structure and Glycosylation of Mucus Glycoproteins by Raman Spectroscopies.

Authors:  Heather S Davies; Prabha Singh; Tanja Deckert-Gaudig; Volker Deckert; Karine Rousseau; Caroline E Ridley; Sarah E Dowd; Andrew J Doig; Paul D A Pudney; David J Thornton; Ewan W Blanch
Journal:  Anal Chem       Date:  2016-11-11       Impact factor: 6.986

3.  Paving the way to conformationally unravel complex glycopeptide antibiotics by means of Raman optical activity.

Authors:  Roy Aerts; Jente Vanhove; Wouter Herrebout; Christian Johannessen
Journal:  Chem Sci       Date:  2021-03-29       Impact factor: 9.825

4.  Prediction of conformationally dependent atomic multipole moments in carbohydrates.

Authors:  Salvatore Cardamone; Paul L A Popelier
Journal:  J Comput Chem       Date:  2015-11-08       Impact factor: 3.376

Review 5.  The Clusters-in-a-Liquid Approach for Solvation: New Insights from the Conformer Specific Gas Phase Spectroscopy and Vibrational Optical Activity Spectroscopy.

Authors:  Angelo S Perera; Javix Thomas; Mohammad R Poopari; Yunjie Xu
Journal:  Front Chem       Date:  2016-02-25       Impact factor: 5.221

6.  Solvent Effects and Aggregation Phenomena Studied by Vibrational Optical Activity and Molecular Dynamics: The Case of Pantolactone.

Authors:  Simone Ghidinelli; Sergio Abbate; Jun Koshoubu; Yasuyuki Araki; Takehiko Wada; Giovanna Longhi
Journal:  J Phys Chem B       Date:  2020-05-26       Impact factor: 2.991

7.  Use of Raman and Raman optical activity to extract atomistic details of saccharides in aqueous solution.

Authors:  Vladimír Palivec; Christian Johannessen; Jakub Kaminský; Hector Martinez-Seara
Journal:  PLoS Comput Biol       Date:  2022-01-20       Impact factor: 4.475

  7 in total

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