Energetics of aminomethylpyrimidines: An examination of the aromaticity of nitrogen heteromonocyclic derivatives

The standard (p^o = 0.1 MPa) molar enthalpies of formation, in the gaseous phase, at the reference temperature of 298.15 K, of 2-amino-4-methylpyrimidine ((98.1 ± 1.6) kJ · mol⁻¹), 2-amino-4,6-dimethylpyrimidine ((55.9 ± 1.8) kJ · mol⁻¹) and 4-amino-2,6-dimethylpyrimidine ((60.1 ± 1.8) kJ · mol⁻¹) were calculated from the enthalpies of formation, in the crystalline phase, and enthalpies of sublimation, derived, respectively, from static bomb combustion calorimetry and Knudsen effusion technique results. In order to quantify the resonance effects arising from the substitution on the pyrimidine ring, hypothetical isodesmic reactions were used to analyze the experimental gaseous-phase enthalpies of formation. The aromaticity of benzene, pyridine, pyrimidine and the substituted pyrimidines was investigated in terms of magnetic (NICS), geometric (HOMA), electronic (Shannon aromaticity, QTAIMs ring critical point properties and HOMO–LUMO gap), reactive (hardness), vibrational (Kekulé mode) and spectroscopic (UV–Vis) properties.     

大脑血液动力学现象中的能量编码

神经信息的编码与解码是神经科学中的核心研究内容,同时又极具挑战性.传统的编码理论都具有各自的局限性,很难从脑的全局运行方式上给出有效的理论.而由于能量是一个标量具有可叠加性,因此能量编码理论可以从神经元活动的能量特征出发来研究脑功能的全局神经编码问题,取得了一系列的研究成果.本研究以王-张神经元能量计算模型为基础,构建了一个多层次结构的神经网络,通过计算机数值模拟得到了神经网络的能量消耗和血液中葡萄糖供能的变化情况.计算结果显示,和网络的神经活动达到峰值的时间相比,血液中葡萄糖的供能达到峰值的时间延迟了约5.6s.从定量的角度再现了功能性核磁共振(fMRI)中的血液动力学现象:大脑某个脑区的神经元集群被激活以后经过5~7 s的延迟,脑血流的变化才会大幅增加.模拟结果表明先前发表的由王-张神经元模型所揭示的负能量机制在控制大脑的血液动力学现象中起着核心的作用,预测了刺激条件下大脑的能量代谢与血流之间变化的本质是由神经元在发放动作电位过程中正、负能量之间的非平衡、不匹配性质所决定的.本文的研究结果为今后进一步探究血液动力学现象的生理学机制提供了新的研究方向,在神经网络的建模与计算方面给出了一个新的视角和研究方法.      

UV filter 2‐ethylhexyl 4‐methoxycinnamate: a structure,energetic and UV–vis spectral analysis based on density functional theory

2‐Ethylhexyl 4‐methoxycinnamate (EHMC) is a very commonly used UVB filter that is known to isomerize from the (E) to the (Z) isomer in the presence of light. In this study, we have performed high level quantum chemical calculations using density functional theory (DFT) with the B3LYP density functional and extended basis sets to study the gas‐phase molecular structure of EHMC and its energetic stability. Calculations were also performed for related smaller molecules cinnamic acid and 4‐methoxycinnamic acid. Charge delocalization has been analyzed using natural charges and Wiberg bond indexes within the natural bond orbital analysis and using nucleus independent chemical shifts. Density functional theory calculations reveal that the (E) isomer of EHMC is more stable than the (Z) by about 20 kJ mol^?1 in both the gas and aqueous phases. The enthalpy of formation in the gas phase of (E)‐EHMC was derived from an isodesmic bond separation reaction. Long‐range corrected DFT calculations in implicit water were made in order to understand the excited state properties of the (E) and (Z) isomers of EHMC. Copyright © 2013 John Wiley & Sons, Ltd.     

Delineating Protein–Protein Curvilinear Dissociation Pathways and Energetics with Naïve Multiple-Walker Umbrella Sampling Simulations

The protein–protein interaction energetics can be obtained by calculating the potential of mean force (PMF) from umbrella sampling (US) simulations, in which samplings are often enhanced along a predefined vector as the reaction coordinate. However, any slight change in the vector may significantly vary the calculated PMF, and therefore the energetics using a random choice of vector may mislead. A non-predefined curve path-based sampling enhancement approach is a natural alternative, but was relatively less explored for protein–protein systems. In this work, dissociation of the barnase–barstar complex is simulated by implementing non-predefined curvilinear pathways in US simulations. A simple variational principle is applied to determine the lower bound PMF, which could be used to derive the standard free energy of binding. Two major dissociation pathways, which include interactions with the RNA-binding loop and the Val 36 to Gly 40 loop, are observed. Further, the proposed approach was used to discriminate the decoys from protein–protein docking studies. © 2019 Wiley Periodicals, Inc.     

Solvation Chemistry of DL‐Nor‐Valine in Aqueous Mixture of Dipolar Aprotic N,N‐Dimethyl Formamide

In this article, we reported the solubilities of the amino acid DL‐nor‐valine (VAL) at five equidistant temeratures i.e. from 15 to 35 °C in aqueous mixtures of N,N‐dimethyl formamide (DMF). The Standard free energies (ΔG (i)) and entropies (ΔS (i)) of transfer of VAL from water to aqueous mixture of cationophilic dipolar aprotic DMF have been evaluated at 25 °C. The transfer of Gibbs energies (ΔG (i)) and entropies (TΔS (i)) due to the chemical effects have been obtained after elimination of cavity effect, estimated by the scaled particle theory and dipole‐dipole interaction effects, computed by the used of Keesom‐orientation expression. The chemical contribution of transfer energetics of DL‐nor‐valine (VAL) are mainly guided by the composite effects of increased dispersion interaction, basicity effect and decreased acidity, hydrogen bonding effects, hydrophilic hydration and hydrophobic hydration of aqueous DMF mixtures as compared to that of reference solvent, water.     

Theoretical methods in thermodynamics of condensed phases

Theoretical possibilities of determining energetic and thermodynamic characteristics of chemical entities in gaseous and condensed (solid and liquid) phases are briefly reviewed. The considerations include quantum chemistry methods which enable evaluation of energetic quantities and statistical thermodynamics dependencies necessary for determining other thermodynamic characteristics. The possible applications of these methods are also discussed in brief.     

Effect of surface treatment on the Hamaker constant of intermediate modulus carbon fibers

The Hamaker constant of unsized intermediate modulus carbon fibers was evaluated by contact angle measurement following the Fowkes theory of interfacial energetics. The effects of a surface treatment (performed by the manufacturer) and an oxygen plasma treatment (performed by us), both of oxidizing nature, proved to slightly increase the value of the Hamaker constant to a level that enhanced by about 9% the Lifshitz-van der Waals contribution to the theoretical adhesion force between the fiber and an epoxy matrix. A possible explanation of the observed increase of the Hamaker constant is the higher contribution to the overall Lifshitz-van der Waals interaction of Keesom (orientation) and Debye (induction) forces.     

MCSCF reaction-path energetics and thermal rate-constants for the reaction of3NH with H2

Summary The intrinsic reaction-path, reactants, transition state and products for the reaction of NH (^3–)+H₂ (¹ _g ⁺ ) NH₂ (²B₁)+H (²S) involving the lowest triplet electronic state of NH₃ were calculated using multi-configuration (MC) SCF methods. The calculated change of internal energy for the reaction of 11.0 kcal mol^–1 agrees with the experimental value within 2 kcal mol^–1. The barrier to reaction is 23.4 kcal mol^–1 high. The harmonic MCSCF reaction-path potential was calculated and canonical variational transition state theory calculations of the rate constants performed over a temperature range from 400 to 2500 K. The computed rate constants are generally two orders of magnitude smaller than those of the comparable reaction of OH with H₂, whereas those of the reverse reaction are by a factor of 20 larger than those of OH₂ with H.     

BNAH还原质子化N—芳基芴亚胺反应的热力学及机理研究

利用热力学循环方法，通过ｐＫ和有关电化学数据的测定，首次得到了ＮＡＤ（Ｐ）Ｈ的辅酶模型物（ＢＮＡＨ）按不机理还原质子化Ｎ－芳基芴亚胺的各基元步骤的自由能变化，结合得到的同位素标纪结果，从热力学趋动力的角度区分了氢负离子的转移机理。     

Sorption of C6 Alkanes in Aluminophosphate Molecular Sieve, AlPO4-5

Sorption of C₆ alkanes viz.,n-hexane, 2-methylpentane, 2,2-dimethyl butane, 2,3-dimethyl butane, cyclohexane and methyl cyclopentane in AlPO₄-5 is studied and sorption capacity and thermodynamic parameters (H⁰, H, G, S and S_a) at various sorption coverage for these sorbates have been estimated. The initial heat of sorption (H⁰) is found to increase with the degree of branching in the alkane chain. The sorbate-sorbate interactions are found to be more prominent during the sorption of doubly branched alkanes and cyclic alkanes and a higher sorption capacity has been observed for cyclic alkanes. Based on the results obtained, a packing model has been proposed for various C₆ alkanes inside the AlPO₄-5 channel.