水环境对GC和AT碱基对质子转移的影响

采用B3LYP/DZP++的方法研究了第一水化层作用和连续化处理的水溶剂作用对鸟嘌呤-胞嘧啶(GC)碱基对和腺嘌呤-胸腺嘧啶(AT)碱基对质子转移反应的影响.GC和AT碱基对在连续化水溶剂作用下,均发生单质子转移(SPT1)和分步的双质子转移(DPT),而在第一水化层5个水分子的作用下(GC·5H2O,AT·5H2O)或同时考虑第一水化层作用和连续化水溶剂作用(GC·5H2O+PCM,AT·5H2O+PCM)时,GC和AT碱基对的质子转移均只得到单质子转移反应(SPT1).单质子转移过程中的活化能变化情况表明:第一水化层对GC和AT碱基对结构和质子转移影响较大,水环境对碱基对的作用主要发生在第一水化层.     

纳米Ag@SiO2核壳结构的表面等离子体共振效应对铕配合物的荧光增强作用

分别制备了二氧化硅壳层厚度为10、25和80 nm的三种Ag@SiO₂纳米粒子, 合成了铕与不同比例苯甲酸根(BA)的配合物、铕与1, 10-邻菲罗啉(phen)及2, 2''-联吡啶(bpy)的配合物, 并对其进行表征. 表征结果推测配合物的组成为Eu(BA)_nCl_3-n·2H₂O (n=1, 2, 3)、Eu(phen)Cl₃·2H₂O和Eu(bpy)Cl₃·2H₂O. 配合物的荧光光谱显示, 在加入Ag@SiO₂纳米粒子后, 复合物的荧光强度有不同程度的增加, 这可能是由于表面等离子体共振造成的. 不同硅壳厚度的Ag@SiO₂纳米粒子的荧光增强顺序是25 nm>80 nm>10 nm, 这表明二氧化硅核壳厚度约25 nm时有较强的表面等离子体共振效应. 此外, 在这些复合物中, Eu(phen)Cl₃·2H₂O复合物的增强效果是最强的, 而Eu(BA)_nCl_3-n·2H₂O的增强效果是最弱的. 在三个苯甲酸铕配合物中, Eu(BA)₃·2H₂O的增强效果最弱, 其他两个苯甲酸铕复合物增强效果相对较好. 原因可能是含氮配合物(Eu(phen)Cl₃·2H₂O和Eu(bpy)Cl₃·2H₂O)可以和Ag@SiO₂更好地成键, 而苯甲酸铕配合物和Ag@SiO₂纳米粒子的作用相对较弱. Ag@SiO₂纳米粒子有望应用于增强稀土材料的发光.     

非晶态镍硼酸盐结构的EXAFS研究

由摩尔比分别为1:2和1:8的NiCl₂·6H₂O和Na₂B₄O₇·10H₂O作为反应物, 合成两种非晶态镍硼酸盐, 同时通过水热法合成β-Ni(OH)₂. 化学分析和热重-微商热重法(TG-DTG)分析结果确定两种非晶态镍硼酸盐的分子组成分别为NiO·0.8B₂O₃·4.5H₂O和NiO·B₂O₃·3H₂O. 激光拉曼(Raman)实验结果表明镍硼酸盐样品中主要存在的硼氧阴离子为B₃O₃(OH)₅^2-和B₂O(OH)₆^2-. 同步辐射扩展X射线吸收精细结构(EXAFS)方法对样品进行结构解析, 通过数据拟合给出样品中Ni 原子周围近邻配位原子种类、配位数以及原子间距离. 用不同晶体结构作为标准对两种非晶态镍硼酸盐进行拟合的结果表明, 样品中Ni 原子周围局域结构与Ni₃B₂O₆晶体(ICSD No.31387)中的吻合较好. Ni 原子周围配位原子为O、B和Ni, 对于NiO·0.8B₂O₃·4.5H₂O, 配位数分别为5.7、3.8和3.8, 配位距离分别为0.208、0.263 和0.311 nm; 对于NiO·B₂O₃·3H₂O, 配位数分别为6.0、4.0 和4.0, 配位距离分别为0.207、0.262和0.310 nm.     

配位化合物Zn(Met)3(NO3)2·H2O(s)(Met=L-α-蛋氨酸)的低温热容及标准摩尔生成焓

利用精密绝热热量仪测定了化合物配合物Zn(Met)₃(NO₃)₂·H₂O (s) (Met=L-α-蛋氨酸)在78-371 K温区的摩尔热容. 通过热容曲线解析, 得到了该配合物的起始脱水温度为T_D=325.10 K. 将该温区的摩尔热容实验值用最小二乘法拟合得到了摩尔热容(C_p)对约化温度(T)的多项式方程, 由此计算得到了配合物的舒平热容值和热力学函数值. 基于设计的热化学循环, 选择100 mL of 2 mol·L^-1 HCl为量热溶剂, 利用等温环境溶解-反应热量计, 得到了298.15 K配合物的标准摩尔生成焓为Δ_fH_m⁰[Zn(Met)₃(NO₃)₂·H₂O(s),s]=-(1472.65±0.76) J·mol^-1.     

B型DNA中鸟嘌呤-胞嘧啶碱基对内双质子转移反应

采用ONIOM(M06-2X/6-31G^*:PM3)方法研究了单个鸟嘌呤-胞嘧啶(GC)碱基对和含GC碱基对的四种排序的DNA三聚体(dATGCAT, dGCGCGC, dTAGCTA, dCGGCCG)的双质子转移反应. 通过分析其双质子转移方式、质子转移过程中各结构的能量和氢键变化, 总结出环境因素对GC碱基对双质子转移机理的影响. 气相中, dCGGCCG三聚体中发生分步双质子转移, 其它四种模型中均发生协同双质子转移. 分析发现质子转移方式受上下相邻碱基对的静电相互作用和质子接受位的质子亲和势影响, dATGCAT和dGCGCGC排序有助于质子H4a转移, 而dTAGCTA和dCGGCCG排序有助于质子H1转移, 胞嘧啶的N3位较高的质子亲和势有助于质子H1转移. 水溶剂中, 上下相邻碱基对的静电相互作用被减弱, 水溶剂稳定了分步转移过程中的单质子转移产物, 因此分步转移机理占据优势, 五种模型中均出现分步双质子转移, 在此过程中能量变化趋势相似. 溶剂效应有利于单质子转移, 却增加了双质子转移反应的反应能.     

对苯二甲酸镁作为钠离子电池的有机负极材料

报道了对苯二甲酸镁作为钠离子电池负极材料的研究. 以对苯二甲酸和氢氧化镁为原料,采用酸碱中和反应制备了含结晶水的对苯二甲酸镁（MgC₈H₄O₄·2H₂O）,该材料对钠离子电池表现出了较好的电化学活性、优异的倍率性能以及良好的循环稳定性. 在0.5C（1C=300 mA·g^-1）倍率下循环50 周以后,可逆容量由114mAh·g^-1降至95 mAh·g^-1,容量保持率高达83%;在2C的倍率下有高达90 mAh·g^-1的可逆比容量. 另外,在氮气气氛中,400 ℃进行后续热处理得到了不含结晶水的对苯二甲酸镁（MgC₈H₄O₄）,探讨了结晶水对其电化学性能的影响. 结果表明,MgC₈H₄O₄·2H₂O的比容量、倍率性能以及循环稳定性都明显优于不含结晶水的对苯二甲酸镁.     

水滑石层间碘酸根离子的还原性机理研究

通过X射线衍射（XRD）和傅里叶变换红外（FTIR）光谱仪表征发现,经水合肼（N₂H₄·H₂O）和亚硫酸钠（Na₂SO₃）两种还原剂处理碘酸根插层水滑石的产物分别为碘离子插层的水滑石（ZnAl-ILDHs）和硫酸根离子插层水滑石（ZnAl-SO₄LDHs）。进一步研究表明,N₂H₄·H₂O和水滑石的反应为D₇模型的核外层扩散反应,N₂H₄·H₂O在水滑石微球界面和IO₃^-发生反应。而Na₂SO₃则先进入了水滑石层间,然后与层间的IO₃^-反应,其模型符合D₁₁动力学模型。     

通过铜(II)、铁(III)和铁(II)与2,2'-联咪唑协同作用构筑的超分子及其结构的研究

在水和乙醇溶剂中, 通过Cu(II), Fe(III)和Fe(II)与2,2-联咪唑协同作用, 构筑了四种新的超分子配合物[Cu(H₂biim)(gly)(H₂O)]Cl•H₂O (1), [Cu(H₂biim)(C₃H₂O₄)(H₂O)]•1.5H₂O (2), [Fe₂(μ-O)(H₂biim)₄(H₂O)₂](NO₃)₄•C₂H₅OH (3)和[Fe(H₂biim)₃]SO₄ (4) (H₂biim＝2,2-联咪唑; gly^－＝甘氨酸根; C₃H₂O＝丙二酸根). 并通过元素分析, 红外光谱和X射线单晶衍射对其组成、结构和谱学性质进行研究. H₂biim配体, 丙二酸根和甘氨酸根三种配体都采用了双齿螯合方式与金属离子配位. 配合物1～4中, 通过H₂biim配体的N—H键与阴离子、水分子和溶剂分子形成多种氢键, 如R(7), R(9)和R(4)等, 以及H₂biim配体之间的π-π堆积, 阳离子不对称单元构筑了多维结构的超分子配合物.     

3-硝基-1,3,4-三唑-5-酮金属(Li,Na, Pb,Cu)盐的制备反应热动力学

在常压、298.15 K条件下, 用RD496-2000微量热仪开展了3-硝基-1,3,4-三唑-5-酮(NTO)金属(Li, Na,Pb, Cu)盐制备反应的热动力学研究, 得到了反应过程中的热力学参数(活化焓、活化熵和活化自由能), 速率常数和动力学参数(活化能、指前因子和反应级数), 还得到了在25-40℃范围内NTO金属(Li, Na, Pb, Cu)盐制备反应过程的反应焓. 结果表明, NTO金属(Li, Na, Pb, Cu)盐的制备反应较容易发生. 基于Hess定律, 得到了Δ_fH_m⁰ (Li(NTO)·2H₂O, aq, 298.15 K)和Δ_fH_m⁰ (Na(NTO)·H₂O, aq, 298.15 K)的值.     

1,2,4-苯三甲酸铜二维网状配合物的合成及结构表征(英)

在室温下,MnSO₄·H₂O和1,2,4-苯三甲酸(H₃BTC)反应得到化合物[Mn(H₂BTC)₂(H₂O)₄]·2H₂O (1),化合物1和CuSO₄·5H₂O反应得到化合物[Cu(HBTC)(H₂O)_1.5]·H₂O (2)。化合物1是一个单核分子化合物。在化合物1中,每个锰离子和两个H₂BTC^－离子及四个水分子配位。化合物2中,每个铜离子和三个HBTC^2－及两个水分子配位,其中的一个水分子起桥联作用从而形成二维网状结构。     

Comparative studies between hydrated hydrogen bonded and stacked DNA base pair

Influence of hydration on the Watson–Crick guanine–cytosine hydrogen bonded (h-bonded) base pair (GC) and stacked pair (G/C) was investigated in their first hydration shell. An electrostatic based approach has been used to identify the potential binding sites for water molecules around GC and G/C pairs. Several geometries of the complexes, GC…(H₂O)_n and G/C…(H₂O)_n (n=1–6) were investigated using HF/6-31G** and HF/6-31G++** methods. Further minimization calculations were performed at both B3P86/6-31G** and MP2/6-31G** levels to assess the role of electron correlation contribution in the hydration process. It can be concluded from the present findings that the stacked base-pair hydrate better than the corresponding h-bonded base pair, and DNA base pairs can accommodate up to 4–5 water molecules whereas stacked pair do accommodate 5–6 water molecules.     

DFT plus PCM calculation for pairing specificity of Watson–Crick‐type bases in aqueous solutions

This study is aimed at explaining the preference for AT and CG pairings and the possible insertion of other tautomeric DNA base pairs such as G_enolT, that respect energetic and steric requirements including at least two hydrogen bonds and 11 ± 0.5Å distance between the 9‐CH₃ of purine and 5‐CH₃ of pyrimidine. The calculated free energy of formation ΔΔG at the DFT B3LYP/6‐31G*‐PCM/BEM level pointed out the CG and AT pairs as the most favored, followed closely by G_enolT, in good agreement with Michaelis–Menten first order kinetics (CG ≈ AT > G_enolT). Unusual DNA base pairs complexes such as AG (BEM) and CT (PCM) resulted to be stable, but it is very difficult to assume that they are likely to be included in the double strand DNA. The calculated enthalpy and dipole moments of isolated DNA bases agree well with experiment. The free energy of hydration, ΔG_hyd, was found to depend on the electrostatic term, while cavitation‐dispersion components are almost constant. The stability of DNA complexes in water resulted from PCM calculations is markedly influenced by the free energy of hydration. © 2009 Wiley Periodicals, Inc. Int J Quantum Chem, 2010     

Microhydration of the guanine-cytosine (GC) base pair in the neutral and anionic radical states: a density functional study

A density functional study of the effects of microhydration on the guanine-cytosine (GC) base pair and its anion radical is presented. Geometries of the GC base pair in the presence of 6 and 11 water molecules were fully optimized in the neutral (GC-nH2O) and anion radical [(GC-nH2O)*-] (n = 6 and 11) states using the B3LYP method and the 6-31+G** basis set. Further, vibrational frequency analysis at the same level of theory (B3LYP/6-31+G**) was also performed to ensure the existence of local minima in these hydrated structures. It was found that water molecules surrounding the GC base pair have significant effects on the geometry of the GC base pair and promote nonplanarity in the GC base pair. The calculated structures were found to be in good agreement with those observed experimentally and obtained in molecular dynamics (MD) simulation studies. The water molecules in neutral GC-nH2O complexes lie near the ring plane of the GC base pair where they undergo hydrogen bonding with both GC and each other. However, in the GC anion radical complexes (GC-nH2O, n = 6, 11), the water molecules are displaced substantially from the GC ring plane. For GC-11H2O*-, a water molecule is hydrogen-bonded with the C6 atom of the cytosine base. We found that the hydration shell initially destabilizes the GC base pair toward electron capture as a transient anion. Energetically unstable diffuse states in the hydration shell are suggested to provide an intermediate state for the excess electron before molecular reorganization of the water molecules and the base pair results in a stable anion formation. The singly occupied molecular orbital (SOMO) in the anion radical complexes clearly shows that an excess electron localizes into a pi orbital of cytosine. The zero-point-energy (ZPE-) corrected adiabatic electron affinities (AEAs) of the GC-6H2O and GC-11H2O complexes, at the B3LYP/6-31+G** level of theory, were found to be 0.74 and 0.95 eV, respectively. However, the incorporation of bulk water as a solvent using the polarized continuum model (PCM) increases the EAs of these complexes to 1.77 eV.     

Dielectric properties of alcohol electrolyte solutions

Dielectric properties of ethanol and 1-hexanol solutions containing LiCl, CaCl₂·2H₂O and Ca(NO₃)₂·4H₂O, respectively, have been determined. It is found that LiCl reduces the static permittivity in ethanol, but CaCl₂·2H₂O and Ca(NO₃)₂·4H₂O both give an initial increase in _s. All the electrolytes studied increase the mean relaxation time of the ethanol solutions. In 1-hexanol the static permittivity is rather invariant for all studied electrolytes at low concentrations, while the same lengthening of the mean relaxation time is observed. When water is added in addition to the hydration water of the electrotyte, the static permittivity in hexanol is almost unaltered while the relaxation time is drastically shortened. The experimental result is discussed in terms of a formation of ion pairs, solvation sheaths, and kinetic depolarization, a partial release of hydration water and a structuring influence on the alcohol structure by the hydrated cation.     

Multiple proton-transfer reactions in DNA base pairs by coordination of pt complex

The possibility of multiple proton-transfer reactions in DNA base pairs because of coordination of cisplatin is theoretically elucidated by density functional theory (DFT) and by quantum mechanics/molecular mechanics (QM/MM) methods with an ONIOM method. From the energetics of two base pairs with the cisplatin, it is theoretically confirmed that the Pt complex is likely to bind in the order cis-(CG)-Pt-(GC), cis-(CG)-Pt-(AT), cis-(TA)-Pt-(AT), where G, C, A, and T are guanine, cytosine, adenine, and thymine, respectively, and the Pt atom bonds to the N7 site of G and A. This result supports the experimental evidence, where the structure cis-A-Pt-A is seldom observed at room temperature. The single proton-transfer reaction occurs in one of the two GC pairs. No simultaneous single proton-transfer reaction can occur in both base pairs. Two different single proton-transferred structures (cis-(CG*)(d)-Pt-(GC)(p) and cis-(CG)(d)-Pt-(G*C)(p), where the asterisk means a proton donor of G) are as stable as the original structures (CG)(d)-Pt-(GC)(p). The same tendency was observed with cis-(CG*)-Pt-(AT). In contrast to cisplatin, multiple single proton-transfer reactions occur in the system consisting of two base pairs with transplatin. The optimized structure agrees with the experimental data for Pt-G coordination except for the hydrogen-bonding length.     

A model study of the intermolecular interactions of amino acids in aqueous solution: The glycine-water system

We have performed calculations of the glycine zwitterion surrounded by water molecules with the help of the mutually consistent field (MCF) method and perturbation theoretical expressions. Two different models for the hydration shell have been chosen, the glycine·6H₂O and glycine·12H₂O complexes, representing the most probable first and second solvation shell, respectively. To calculate the exchange and charge transfer energy contributions we have applied approximative expressions derived from perturbation theory for weakly overlapping subunits. For the sake of comparison we also calculated the interaction energy in the supermolecule approach for the smaller of the two solvation complexes. Furthermore, we have investigated the part of the potential energy surface which is determined by varying the lengths of the hydrogen bonds between glycine and water in the complex glycine·12H₂O using the electrostatic approach. The exchange energy contribution to the interaction energy for different points on the surface was approximated with the help of an analytical expression fitted to three directly calculated points. For the charge transfer energy a polynomial expansion of second order was established on the basis of five values, computed with the aid of the perturbation theoretical expression. To get a more detailed insight in the relatively strong hydrogen bonds between the water molecules and the ionic hydrophilic parts of glycineab initio model studies on NH ₄ ⁺ ·3H₂O and HCOO⁻·3H₂O systems are reported.     

Hydration of the ions Al3+ and Cu2+. An ab initio SCF study

Ab initio calculations are reported for the systems Al(H₂O)_n³⁺ and Cu(H₂O)_n²⁺ with n up to 7. The calculated binding energies increase monotically up to n = 6, with equal binding energies for n = 6 and 7 for the Al³⁺ cation. An estimate of the enthalpy of hydration of Al³⁺ is given, based on model calculations with one or two water molecules from the second solvation shell. An SN1 (dissociative) mechanism for the exchange of the water molecules from the first hydration shell of Al³⁺ appears energetically favorable if the leaving molecule remains in the second hydration shell.     

NMR studies of uranyl benzenesulfonate solvation and phase diagram of uranyl benzenesulfonate-water-tributyl phosphate system

Uranyl hydration and solvation numbers of uranyl benzenesulfonate (BSU) aqueous-organic solutions have been determined by means of dynamic NMR spectroscopy technique. Three aqua-complexes have been found to exist in aqueous-acetone solution: [UO₂ (U₆H₅SO₃)₂·4H₂O] and [UO₂(C₆H₅SO₃)₂·(H₂O)_n] where n=1 or 2 and anions are bridging bidentate. Transition from [UO₂ (C₆H₅SO₃)₂·4H₂O] to the higher aqua complexes begins at P>40. There is a disolvate in the non-aqueous solution of BSU in tri-n-butyl phosphate (TBP). Composition of aqueous and organic phase of the BSU-water-TBP ternary system has been determined at room temperature, allowing to produce the phase diagram of the system. The binodale position is related to the anion amphiphilicity. The solvation number determined for BSU in the organic phases corresponds exactly to the low temperature data and allows to observe BSU dehydration and desolvation in the region of mutual dissolution of water and the organic phase, as well as TBP and the aqueous phase.     

Effect of nucleobase sequence on the proton-transfer reaction and stability of the guanine-cytosine base pair radical anion

The formation of base pair radical anions is closely related to many fascinating research fields in biology and chemistry such as radiation damage to DNA and electron transport in DNA. However, the relevant knowledge so far mainly comes from studies on isolated base pair radical anions, and their behavior in the DNA environment is less understood. In this study, we focus on how the nucleobase sequence affects the properties of the guanine-cytosine (GC) base pair radical anion. The energetic barrier and reaction energy for the proton transfer along the N(1)(G)-H···N(3)(C) hydrogen bond and the stability of GC˙(-) (i.e., electron affinity of GC) embedded in different sequences of base-pair trimer were evaluated using density functional theory. The computational results demonstrated that the presence of neighboring base pairs has an important influence on the behavior of GC˙(-) in the gas phase. The excess electron was found to be localized on the embedded GC and the charge leakage to neighboring base pairs was very minor in all of the investigated sequences. Accordingly, the sequence behavior of the proton-transfer reaction and the stability of GC˙(-) is chiefly governed by electrostatic interactions with adjacent base pairs. However, the effect of base stacking, due to its electrostatic nature, is severely screened upon hydration, and thus, the sequence dependence of the properties of GC˙(-) in aqueous environment becomes relatively weak and less than that observed in the gas phase. The effect of geometry relaxation associated with neighboring base pairs as well as the possibility of proton transfer along the N(2)(G)-H···O(2)(C) channel have also been investigated. The implications of the present findings to the electron transport and radiation damage of DNA are discussed.     

Solvation of bivalent transition metalcations. II. Heats of transfer of metal perchlorates between water and several amides

Heats of solution of acetonitrile, solvated or hydrated perchlorates, Mn(ClO₄)₂·6AN, Co(ClO₄)₂·6AN, Ni(ClO₄)₂·6AN, Cu(ClO₄)₂·4AN, Cu(ClO₄)₂·6H₂O, Zn(ClO₄)₂·6AN, and Zn(ClO₄)₂·6H₂O have been determined in NMF, DMF, DMA, and water. Complete or almost complete exchange of AN and water molecules in amides is inferred from the visible spectra determinations. The heats of transfer of perchlorate anion from water to DMA and NMF have been obtained from separately determined heats of solution of NaBPh₄, AsPH₄Cl·H₂O, NaClO₄, NaCl, and SiPh₄ in the respective solvents. The heats of transfer of cations from water to amides have been determined from the above data and the heats of solvation of cations using literature data for the heats of hydration.