与正辛醇相关的醚醇分子间和分子内氢键的相互作用。

IF 4.2 2区 化学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY
Markus M Hoffmann, Troy N Smith, Gerd Buntkowsky
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引用次数: 0

摘要

利用两个经典的全原子力场OPLS-AA和CHARMM对正辛醇及其相关醚醇进行了分子动力学(MD)模拟。所研究的醚醇具有一个醚官能团,由不同的n个碳原子与羟基分开,以阐明醚官能团的位置如何影响分子内和分子间的氢键,进而影响所研究的醇的物理性质。从两种力场的模拟中观察到的重要的一般趋势包括:分子内氢键主要存在于3-丁基丙醇和4-丙氧基丁醇(n = 3和4)中,而在5-乙氧基戊醇和6-甲氧基己醇(n = 5和6)中仅少量存在,而在1-己氧基甲醇和2-戊氧基乙醇(n = 1和2)中不存在。由3-丁氧基丁醇和4-丙氧基丁醇形成的分子内氢键是目前所有氢键中最稳定的。羟基(OH-OH)之间的分子间氢键比羟基与醚基(OH-OE)之间的分子间氢键强。温度升高导致分子间氢键OH-OH和氢键OH-OE的减少,但分子内氢键的轻微增加。在较高的温度下,还观察到所有研究的醇的端到端距离减少,这可能是二面体键旋转增加的反映。氢键主要在两个分子之间延伸,而氢键网络虽然很少,但确实存在,在某些情况下,涉及多达30个氢键。在不考虑力场和温度的情况下,得到的径向分布函数(rdf)在相同的距离上大多表现出相同的特征,只是强度不同。1-己氧甲醇形成一种非常特异和稳定的分子间双OH-OE氢键二聚体。类似的双氢键二聚体可以在醚醇中找到,但只在2-戊氧基乙醇中显著存在。总的来说,OPLS-AA和CHARMM的主要区别在于它们对当前氢键形态的定量预测,这主要是由于与CHARMM力场相比,OPLS-AA中的二面体电位更硬。模拟结果表明:(a)密度的变化与分子内氢键导致的填充效率降低有关,(b)自扩散与分子间氢键的稳定性有关,(c)氢键网络的存在虽然数量很少,但影响粘度。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
The Interplay of Inter- and Intramolecular Hydrogen Bonding in Ether Alcohols Related to n-Octanol.

n-Octanol and related ether alcohols are studied via molecular dynamics (MD) simulations using the two classical all-atom force fields OPLS-AA and CHARMM. The ether alcohols studied possess one ether functionality separated by varying n carbon atoms from the hydroxy group to elucidate how the positioning of the ether functionality affects intra- and intermolecular hydrogen bonding and, in turn, the physical properties of the studied alcohols. Important general trends observed from simulations with both force fields include the following: Intramolecular hydrogen bonding is majorly present in 3-butoxypropanol and 4-propoxybutanol (n = 3 and 4) while being only marginally present for 5-ethoxypentanol and 6-methoxyhexanol (n = 5 and 6) and absent in 1-hexyloxymethanol and 2-pentyloxyethanol (n = 1 and 2). The intramolecular hydrogen bonds formed by 3-butoxypropanol and 4-propoxybutanol are among the most stable ones of all present hydrogen bonds. Intermolecular hydrogen bonding is stronger between hydroxy groups (OH-OH) than between hydroxy and ether groups (OH-OE). An increased temperature causes a reduction in intermolecular OH-OH and OH-OE hydrogen bonding but a slight increase in intramolecular hydrogen bonding. A reduction in end-to-end distances at a higher temperature is also observed for all studied alcohols, which is likely a reflection of increased dihedral bond rotations. Hydrogen bonding extends mostly between just two molecules while hydrogen bonding networks are rare but do exist, involving, in some instances, up to 30 hydrogen bonds. Regardless of force field and temperature, the obtained radial distribution functions (RDFs) mostly show the same features at same distances that only vary in their intensity. 1-hexyloxymethanol forms a very specific and stable intermolecular double OH-OE hydrogen-bonded dimer. Similar double-hydrogen-bonded dimers can be found for the ether alcohols but are only significantly present for 2-pentyloxyethanol. Overall, the main difference between OPLS-AA and CHARMM is their quantitative prediction of the present hydrogen bonding speciation largely due to the stiffer dihedral potentials in OPLS-AA compared to the CHARMM force field. The simulations indicate that (a) the variations in densities are correlated to the reduced packing efficiency caused by intramolecular hydrogen bonding, (b) self-diffusion correlates with the stability of the intermolecular hydrogen bonds, and (c) the presence of hydrogen-bonded networks, although small in numbers, affect the viscosity.

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来源期刊
Molecules
Molecules 化学-有机化学
CiteScore
7.40
自引率
8.70%
发文量
7524
审稿时长
1.4 months
期刊介绍: Molecules (ISSN 1420-3049, CODEN: MOLEFW) is an open access journal of synthetic organic chemistry and natural product chemistry. All articles are peer-reviewed and published continously upon acceptance. Molecules is published by MDPI, Basel, Switzerland. Our aim is to encourage chemists to publish as much as possible their experimental detail, particularly synthetic procedures and characterization information. There is no restriction on the length of the experimental section. In addition, availability of compound samples is published and considered as important information. Authors are encouraged to register or deposit their chemical samples through the non-profit international organization Molecular Diversity Preservation International (MDPI). Molecules has been launched in 1996 to preserve and exploit molecular diversity of both, chemical information and chemical substances.
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