Literature DB >> 15925351

B3LYP/6-311++G** geometry-optimization study of pentahydrates of alpha- and beta-D-glucopyranose.

Frank A Momany1, Michael Appell, J L Willett, Wayne B Bosma.   

Abstract

Five water molecules were placed in 37 different configurations around alpha- and beta-D-glucopyranose in the gt, gg, and tg conformational states, and the glucose-water complexes were geometry optimized using density functionals at the B3LYP/6-311++G** level of theory. The five water molecules were organized in space and energy minimized using an empirical potential, AMB02C, and then further geometry optimized using DFT algorithms to minimum energy positions. Electronic energy, zero point vibrational energy, enthalpy, entropy, stress energy on glucose and the water cluster, hydrogen-bond energy, and relative free energy were obtained for each configuration using thermodynamic procedures and an analytical Hessian program. The lowest energy complex was that of a clustering of water molecules around the 1- and 6-hydroxyl positions of the beta-gt anomer. Configurations in which the water molecules created a favorable network completely around and under glucose were found to have low energy for both alpha and beta anomers. Calculation of the alpha/beta anomeric ratio using the zero point corrected energy gave, approximately 32/68%, highly favoring the beta anomer in agreement with the experimental approximately 36/64% value. This ratio is better than the approximately 50/50% ratio found in our previous monohydrate study. An approximate hydroxymethyl population was obtained by noting average relative energies among the three conformational states, gt, gg, and tg. In the beta anomer complexes the gt conformation was favored over the gg state, while in the alpha anomer complexes the gg state was favored over the gt conformation, with the tg conformations all being of higher energy making little or no contribution to the rotamer population. Some geometry variances, found between glucose in vacuo and glucose after interaction with water molecules, are described and account for some observed C-5-C-6 bond length anomalies reported by us previously for the vacuum glucose structures.

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Year:  2005        PMID: 15925351     DOI: 10.1016/j.carres.2005.04.020

Source DB:  PubMed          Journal:  Carbohydr Res        ISSN: 0008-6215            Impact factor:   2.104


  5 in total

1.  Testing the CP-correction procedure with different DFT methods on H-bonding complexes of κ-carrabiose with water molecules.

Authors:  Rachida Fodil; Majda Sekkal-Rahal; Adlane Sayede
Journal:  J Mol Model       Date:  2017-01-14       Impact factor: 1.810

2.  Hydrogen bonds in galactopyranoside and glucopyranoside: a density functional theory study.

Authors:  Zahrabatoul Mosapour Kotena; Reza Behjatmanesh-Ardakani; Rauzah Hashim; Vijayan Manickam Achari
Journal:  J Mol Model       Date:  2012-09-13       Impact factor: 1.810

3.  Synthesis, Molecular Modeling Study, and Quantum-Chemical-Based Investigations of Isoindoline-1,3-diones as Antimycobacterial Agents.

Authors:  Iqrar Ahmad; Rahul H Pawara; Rukaiyya T Girase; Asama Y Pathan; Vilas R Jagatap; Nisheeth Desai; Yusuf Oloruntoyin Ayipo; Sanjay J Surana; Harun Patel
Journal:  ACS Omega       Date:  2022-06-10

4.  Density functional conformational study of 2-O-sulfated 3,6 anhydro-α-D-galactose and of neo-κ- and ι-carrabiose molecules in gas phase and water.

Authors:  Noreya Bestaoui-Berrekhchi-Berrahma; Philippe Derreumaux; Majda Sekkal-Rahal; Michael Springborg; Adlane Sayede; Noureddine Yousfi; Abd-Ed-Daim Kadoun
Journal:  J Mol Model       Date:  2012-10-20       Impact factor: 1.810

5.  Online analysis of D-glucose and D-mannose aqueous mixtures using Raman spectroscopy: an in silico and experimental approach.

Authors:  Vincent Dumouilla; Claude Gilles Dussap
Journal:  Bioengineered       Date:  2021-12       Impact factor: 3.269

  5 in total

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