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Temperature Dependence of Hydroxymethyl Group Rotamer Populations in Cellooligomers
Stockholm University, Faculty of Science, Department of Organic Chemistry.
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2015 (English)In: Journal of Physical Chemistry B, ISSN 1520-6106, E-ISSN 1520-5207, Vol. 119, no 30, 9559-9570 p.Article in journal (Refereed) Published
Abstract [en]

Empirical force fields for computer simulations of carbohydrates are often implicitly assumed to be valid also at temperatures different from room temperature for which they were optimited: Herein, the temperature dependence of the hydroxymethyl group rotamer populations in short oligogaccharides is invegtigated using Molecular dynamics simulations and NMR spectroscopy. Two oligosaccharides, methyl beta-cellobioside and beta-cellotetraose were simulated using three different carbohydrate force fields (CHARMM C35, GLYCAM06, and GROMOS 56A(carbo)) in combination with different water models (SPC, SPC/E, and TIP3P) using replica exchange molecular dynamics simulations. For comparison, hydroxymethyl group rotamer populations were investigated for methyl beta-cellobioside and cellopentaose based- on measured NMR (3)J(H5,H6) coupling constants, in the latter case by using a chemical shift selective NMR-filter. Molecular dynamics simulations in combination with NMR spectroscopy show that the temperature dependence of the hydroxymethyl rotamer population in these short cellooligomers, in the range 263-344 K, generally becomes exaggerated in simulations when compared to experimental data, but also that it is dependent on simulation conditions, and most notably properties of the water model.

Place, publisher, year, edition, pages
American Chemical Society (ACS), 2015. Vol. 119, no 30, 9559-9570 p.
National Category
Organic Chemistry
Research subject
Organic Chemistry
Identifiers
URN: urn:nbn:se:su:diva-120075DOI: 10.1021/acs.jpcb.5b02866ISI: 000359031400009OAI: oai:DiVA.org:su-120075DiVA: diva2:851824
Funder
Swedish Research CouncilKnut and Alice Wallenberg FoundationSwedish Foundation for Strategic Research
Available from: 2015-09-07 Created: 2015-09-01 Last updated: 2017-12-04Bibliographically approved

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Angles d'Ortoli, ThibaultWidmalm, Göran
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