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N,N'-双(吡啶-3-基甲基)乙二酰胺一水合物:晶体结构、 Hirshfeld表面分析及计算研究

,'-Bis(pyridin-3-ylmeth-yl)ethanedi-amide monohydrate: crystal structure, Hirshfeld surface analysis and computational study.

作者信息

Tan Sang Loon, Tiekink Edward R T

机构信息

Research Centre for Crystalline Materials, School of Science and Technology, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia.

出版信息

Acta Crystallogr E Crystallogr Commun. 2020 Jan 1;76(Pt 1):25-31. doi: 10.1107/S2056989019016153.

Abstract

The mol-ecular structure of the title bis-pyridyl substituted di-amide hydrate, CHNO·HO, features a central CNO residue (r.m.s. deviation = 0.0205 Å) linked at each end to 3-pyridyl rings through methyl-ene groups. The pyridyl rings lie to the same side of the plane, have a -periplanar relationship, and form dihedral angles of 59.71 (6) and 68.42 (6)° with the central plane. An almost orthogonal relationship between the pyridyl rings is indicated by the dihedral angle between them [87.86 (5)°]. Owing to an disposition between the carbonyl-O atoms in the core, two intra-molecular amide-N-H⋯O(carbon-yl) hydrogen bonds are formed, each closing an (5) loop. Supra-molecular tapes are formed in the crystal amide-N-H⋯O(carbon-yl) hydrogen bonds and ten-membered {⋯HNCO} synthons. Two symmetry-related tapes are linked by a helical chain of hydrogen-bonded water mol-ecules water-O-H⋯N(pyrid-yl) hydrogen bonds. The resulting aggregate is parallel to the -axis direction. Links between these, methyl-ene-C-H⋯O(water) and methyl-ene-C-H⋯π(pyrid-yl) inter-actions, give rise to a layer parallel to (10); the layers stack without directional inter-actions between them. The analysis of the Hirshfeld surfaces point to the importance of the specified hydrogen-bonding inter-actions, and to the significant influence of the water mol-ecule of crystallization upon the mol-ecular packing. The analysis also indicates the contribution of methyl-ene-C-H⋯O(carbon-yl) and pyridyl-C-H⋯C(carbon-yl) contacts to the stability of the inter-layer region. The calculated inter-action energies are consistent with importance of significant electrostatic attractions in the crystal.

摘要

标题化合物双吡啶取代二酰胺水合物CHNO·HO的分子结构特点是,一个中心CNO残基(均方根偏差 = 0.0205 Å)通过亚甲基在两端与3-吡啶环相连。吡啶环位于平面的同一侧,具有邻位平面关系,与中心平面形成的二面角分别为59.71(6)°和68.42(6)°。吡啶环之间的二面角[87.86(5)°]表明它们之间几乎呈正交关系。由于核心中羰基-O原子之间的排列方式,形成了两个分子内酰胺-N-H⋯O(羰基)氢键,每个氢键都形成一个(5)环。在晶体中,通过酰胺-N-H⋯O(羰基)氢键和十元{⋯HNCO}合成子形成超分子带。两条对称相关的带通过氢键连接的水分子螺旋链(水-O-H⋯N(吡啶基)氢键)相连。所得聚集体平行于轴方向。这些之间的连接,即亚甲基-C-H⋯O(水)和亚甲基-C-H⋯π(吡啶基)相互作用,产生了一个平行于(10)的层;这些层堆叠时它们之间没有定向相互作用。对Hirshfeld表面的分析表明了特定氢键相互作用的重要性,以及结晶水分子对分子堆积的显著影响。分析还表明亚甲基-C-H⋯O(羰基)和吡啶基-C-H⋯C(羰基)接触对层间区域稳定性的贡献。计算得到的相互作用能与晶体中显著静电吸引的重要性一致。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/ba9d/6944093/8daa8effb0e7/e-76-00025-fig1.jpg

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