Molecular dynamics simulations of trehalose as a 'dynamic reducer' for solvent water molecules in the hydration shell

被引:82
作者
Choi, Youngjin
Cho, Kum Won
Jeong, Karpjoo
Jung, Seunho [1 ]
机构
[1] Konkuk Univ, Coll Informat & Commun, Seoul 143701, South Korea
[2] Konkuk Univ, Dept Adv Technol Fus, Seoul 143701, South Korea
[3] Korea Inst Sci & Technol Informat, Taejon 305806, South Korea
[4] Konkuk Univ, Biomol Informat Ctr, Seoul 143701, South Korea
[5] Konkuk Univ, Dept Microbial Engn, Seoul 143701, South Korea
[6] Konkuk Univ, Dept Biosci & Biotechnol, Seoul 143701, South Korea
关键词
molecular dynamics simulations; anisotropic hydration; conformational flexibility; disaccharide; glycosidic linkage; long-lived hydrogen bond;
D O I
10.1016/j.carres.2006.02.032
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Systematic computational work for a series of 13 disaccharides was performed to provide an atomic-level insight of unique biochemical role of the alpha, alpha-(1 -> 1)-linked glucopyranoside dinner over the other glycosidically linked sugars. Superior osmotic and cryoprotective abilities of trehalose were explained on the basis of conformational and hydration characteristics of the trehalose molecule. Analyses of the hydration number and radial distribution function of solvent water molecules showed that there was very little hydration adjacent to the glycosidic oxygen of trehalose and that the dynamic conformation of trehalose was less flexible than any of the other sugars due to this anisotropic hydration. The remarkable conformational rigidity that allowed trehalose to act as a sugar template was required for stable interactions with hydrogen-bonded water molecules. Trehalose made an average of 2.8 long-lived hydrogen bonds per each MD step, which was much larger than the average of 2.1 for the other sugars. The stable hydrogen-bond network is derived from the formation of long-lived water bridges at the expense of decreasing the dynamics of the water molecules. Evidence for this dynamic reduction of water by trehalose was also established based on each of the lowest translational diffusion coefficients and the lowest intermolecular coulombic energy of the water molecules around trehalose. Overall results indicate that trehalose functions as a 'dynamic reducer' for solvent water molecules based on its anisotropic hydration and conformational rigidity, suggesting that macroscopic solvent properties could be modulated by changes in the type of glycosidic linkages in sugar molecules. (c) 2006 Elsevier Ltd. All rights reserved.
引用
收藏
页码:1020 / 1028
页数:9
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