Intramolecular S···O chalcogen bond in thioindirubin

Results of X-ray diffraction study and quantum-chemical calculations revealed that molecular conformation of thioindirubin molecule creates suitable conditions for formation of intramolecular C–H···O and S···O interactions. Analysis of molecular electrostatic potential (MEP) demonstrates existence of two areas of positive MEP (σ-holes) in the outermost part of the sulfur atom on the continuation of the lines of the C–S bonds. One of these σ-holes is oriented toward region of negative MEP around the oxygen atom of carbonyl group. Such situation corresponds to formation of σ-hole or chalcogen bond. Existence of both types of bonding interactions is confirmed by topological analysis of electron density distribution using “Atoms in Molecules” (AIM) theory. Energies of the C–H···O hydrogen bond and the S···O σ-hole bond derived from AIM and NBO theories are very close.     

Weak H-bonds. Comparisons of CH···O to NH···O in proteins and PH···N to direct P···N interactions

Whereas CH···O H-bonds are usually weaker than interpeptide NH···O H-bonds, this is not necessarily the case within proteins. The nominally weaker CH···O are surprisingly strong, comparable to, and in some cases stronger than, the NH···O H-bonds in the context of the forces that hold together the adjacent strands in protein β-sheets. The peptide NH is greatly weakened as proton donor in certain conformations of the protein backbone, particularly extended structures, and forms correspondingly weaker H-bonds. The PH group is a weak proton donor, but will form PH···N H-bonds. However, there is a stronger interaction in which P can engage, in which the P atom, not the H, directly approaches the N electron donor to establish a direct P···N interaction. This approach is stabilized by the same sort of electron transfer from the N lone pair to the P-H σ* antibond that characterizes the PH···N H-bond.     

Synthesis and thermochemical characteristics of Na2O · Al2O3 · 2.5H2O

A pure phase of monosodium aluminate hydrate Na₂O · Al₂O₃ · 2.5H₂O (MAH) is synthesized and characterized by means of XRD, IR, SEM, TGA, and DSC. The heat capacity of the compound is measured in the temperature range of ?100 to 100°C, and the thermal contributions to enthalpy and entropy are calculated. The standard entropy, enthalpy, and Gibbs energy of formation of MAH at 298 K are estimated.     

Novel type of mixed O–H···N/O–H···π hydrogen bonds: monohydrate of pyridine

Investigation of characteristics of hydrogen bonding between pyridine and water by MP2/aug-cc-pvdz method reveals that these two molecules may form three types of hydrogen bonds depending on nature of proton withdrawal site of pyridine. Change of orientation of water with respect to plane of aromatic ring leads to transformation of the O–H···N bond to O–H···π bond via wide region of the potential energy surface where both lone pair of the nitrogen atom and π-system make significant contribution into hydrogen bonding. Hydrogen bond in this intermediate region may be considered as mixed O–H···N/O–H···π bond representing new type of H bonds.     

电子转移反应O2+O2·-→O2·-+O2的从头算研究

利用abinitio方法,在UHF,UMP2及不同基组3-21G,6-31G^*,6-311+G^*和UMP2(full)/6-311+G^*水平上,研究了O~2/O~2^.^-自交换电子转移反应。优化了电子转移前后反应物和产物的结构,研究了体系能量的变化,计算了自交换电子转移反应的内重组能。对UHF方法和UMP2方法的计算结果进行了比较,并与实验结果进行了对照。结果表明UHF方法由于没有考虑组态相互作用,计算结果存在较大偏差,UMP2(full)/6-311+G^*水平上的计算结果与实验值吻合较好。在UMP2(full)/6-311+G^*水平上计算了气相自交换电子转移反应速率常数。在优化了电子转移复合物结构的基础上考虑了溶剂效应的影响,计算了水溶液中的溶剂重组能。研究结果表明O~2/O~2^.^-体系电子转移反应的活化能主要来源于溶剂重组能的贡献。最后计算了该反应在水溶液中的反应速率常数。理论计算结果与实验值吻合得很好。     

Microwave spectroscopic and theoretical studies on the phenylacetylene···H2O complex: C-H···O and O-H···π hydrogen bonds as equal partners

Rotational spectra of five isotopologues of the title complex, C(6)H(5)CCH···H(2)O, C(6)H(5)CCH···HOD, C(6)H(5)CCH···D(2)O, C(6)H(5)CCH···H(2)(18)O and C(6)H(5)CCD···H(2)O, were measured and analyzed. The parent isotopologue is an asymmetric top with κ = -0.73. The complex is effectively planar (ab inertial plane) and both 'a' and 'b' dipole transitions have been observed but no c dipole transition could be seen. All the transitions of the parent complex are split into two resulting from an internal motion interchanging the two H atoms in H(2)O. This is confirmed by the absence of such doubling for the C(6)H(5)CCH···HOD complex and a significant reduction in the splitting for the D(2)O analog. The rotational spectra, unambiguously, reveal a structure in which H(2)O has both O-H···π (π cloud of acetylene moiety) and C-H···O (ortho C-H group of phenylacetylene) interactions. This is in agreement with the structure deduced by IR-UV double resonance studies (Singh et al., J. Phys. Chem. A, 2008, 112, 3360) and also with the global minimum predicted by advanced electronic structure theory calculations (Sedlack et al., J. Phys. Chem. A, 2009, 113, 6620). Atoms in Molecule (AIM) theoretical analysis of the complex reveals the presence of both O-H···π and C-H···O hydrogen bonds. More interestingly, based on the electron densities at the bond critical points, this analysis suggests that both these interactions are equally strong. Moreover, the presence of both these interactions leads to significant deviation from linearity of both hydrogen bonds.     

Competition between H···π and H···O interactions in furan heterodimers

Here the interactions of furan with HZ (Z = CCH, CCF, CN, Cl, and F) are studied using a variety of electron correlation methods (MP2, CCSD(T), DFT-SAPT) and correlation-consistent triple- and quadruple-ζ basis sets including complete basis set (CBS) extrapolation. For Fu-HF all methods agree that a n-type structure with a hydrogen bridge between the oxygen lone-pair of furan and the hydrogen atom of HF is the global minimum structure. It is found to be significantly more stable than a π-type structure where the hydrogen atom of HF points toward the π system of furan. For the other four dimers MP2 and DFT-SAPT predict the π-type structure to be somewhat more stable, while CCSD(T) favors the n-type structure as the global minimum for Fu-HCl and predicts both structures as nearly isoenergetic for Fu-HCCH and Fu-HCCF. From a geometrical point of view, the Fu-HCN dimer structures are more related to those of the Fu-HCl complex than to Fu-HCCH. The different behavior of HCCF and HF upon complexation with furan evidence the effect of the presence of a π system in the aggregation of fluorine derivatives. It is shown that aggregates of furan cannot be understood by means of dipole-dipole and electrostatic analysis only. Yet, through a combined and detailed analysis of DFT-SAPT energy contributions and resonance effects on the molecular charge distributions a consistent explanation of the aggregation of furan with both π electron rich molecules and halogen hydrides is provided.     

Intramolecular C-H···O hydrogen bonding in 1,4-dihydropyridine derivatives

The diastereotopy of the methylene protons at positions 2 and 6 in 1,4-dihydropiridine derivatives with various substituents has been investigated. NMR spectroscopy and quantum chemistry calculations show that the CH···O intramolecular hydrogen bond is one of the factors amplifying the chemical shift differences in the 1H-NMR spectra.     

Thermodynamic properties of two zinc borates: 3ZnO·3B2O3·3.5H2O and 6ZnO·5B2O3·3H2O

Two pure zinc borates with microporous structure 3ZnO·3B₂O₃·3.5H₂O and 6ZnO·5B₂O₃·3H₂O have been synthesized and characterized by XRD, FT-IR, TG techniques and chemical analysis. The molar enthalpies of solution of 3ZnO·3B₂O₃·3.5H₂O(s) and 6ZnO·5B₂O₃·3H₂O(s) in 1 mol · dm⁻³ HCl(aq) were measured by microcalorimeter at T = 298.15 K, respectively. The molar enthalpies of solution of ZnO(s) in the mixture solvent of 2.00 cm³ of 1 mol · dm⁻³ HCl(aq) in which 5.30 mg of H₃BO₃ were added were also measured. With the incorporation of the previously determined enthalpy of solution of H₃BO₃(s) in 1 mol · dm⁻³ HCl(aq), together with the use of the standard molar enthalpies of formation for ZnO(s), H₃BO₃(s), and H₂O(l), the standard molar enthalpies of formation of −(6115.3 ± 5.0) kJ · mol⁻¹ for 3ZnO·3B₂O₃·3.5H₂O and −(9606.6 ± 8.5) kJ · mol⁻¹ for 6ZnO·5B₂O₃·3H₂O at T = 298.15 K were obtained on the basis of the appropriate thermochemical cycles.     

209Bi NQR in Mixed Oxides 2Bi2O3· B2O3, 3Bi2O3· 5B2O3, and Bi2O3· 3B2O3

It was earlier found from nuclear quadrupole resonance (NQR) measurements and computer modeling that -Bi₂O₃, Bi₃O₄Br and mixed oxides Bi₂O₃· 2Al₂O₃, Bi₂O₃· 2Ga₂O₃, Bi₂O₃· 3GeO₂, and 2Bi₂O₃· 3GeO₂exhibit local ordered magnetic fields from 30 to 200 G. It thus follows that these compounds are not diamagnets in a conventional sence of the word. With the aim of revealing previously unknown magnetic properties in bismuth(III) oxide-based Main Group element compounds, the mixed bismuth–boron oxides 2Bi₂O₃· B₂O₃, 3Bi₂O₃· 5B₂O₃, and Bi₂O₃· 3B₂O₃were prepared and studied using ²⁰⁹Bi NQR. The quadrupole interactions of the ²⁰⁹Bi nuclei and their electronic environment were studied, the crystallochemical features of the compounds were discussed, and the conformity of the ²⁰⁹Bi results to the X-ray structure data was verified. The preliminary tests in the field of a permanent magnet showed that the resonance intensities increase in external magnetic fields, indicating that a magnetism of unknown nature develops in the titled compounds. It was found reasonable to continue studies of the magnetic properties of these compounds using single-crystal ²⁰⁹Bi NQR in external magnetic fields.     

The double-layered hydro­xide 3CaO·Al2O3·0.5CaBr2·0.5CaCl2·10H2O

The title compound, calcium oxide–dialuminium trioxide–calcium dibromide–calcium dichloride hydrate (3/1/0.5/0.5/10), also formulated as Ca₂Al(OH)₆Br_0.478Cl_0.522·2H₂O (dicalcium aluminium hydro­xide hemibromide hemichloride dihydrate), is a double-layered hydro­xide which belongs to the solid solution Ca₂Al(OH)₆Br_xCl_1−x·2H₂O, where x can vary from 0 to 1. Chloride and bromide anions of the negatively charged interlayer [Br_0.5Cl_0.5·2H₂O]⁻ share statistically the same crystallographic site. Al³⁺ and Ca²⁺ cations are coordinated by six and seven O atoms, respectively. All water mol­ecules are bonded to Ca²⁺ cations and assume the seventh coordination position. Anions in the interlayer are surrounded by ten H atoms. Br⁻ and Cl⁻ are therefore connected to the main layer by ten hydrogen bonds, six of 2.74 (2) Å and four of 2.52 (5) Å, where the donors are hydroxyl groups and water mol­ecules, respectively. Like the chloride equivalent, the title compound is a 6R polytype with trigonal space group Rc and lattice parameters a = 5.7537 (4) Å and c = 48.108 (4) Å.     

氯化二(羟胺根)·(羟胺—O)·水合氧钒(Ⅴ)[VO·(NH_2O)_2·(NH_3O)·H_2O]Cl的晶体结构

调节硫酸氧钒与盐酸羟胺溶液至pH～4制得的题目晶体属空间群P2_1/n,晶胞参数a=8.201,b=8.597,c=9.947A,β=93.00°,Z=4.结构解出精修后R因子为0.069.结果表明,不对称单位中二个羟胺根以侧接态与VO~(3+)配位,另一羟胺取端接态以O占据V的第五赤道配位位置,配位水处于氧钒基强键反位,Cl~-则在配阳离子界外以平衡电荷,晶体对的化学式确证为[(VO~(3+))(NH_2O~_)_2(NH_3O)(H_2O)][Cl~-]     

A triple helical structure supported solely by C-H···O hydrogen bonding

A novel triple helical structure that is self-assembled by cationic molecules, 1-acetamido-3-(2-pyrazinyl)-imidazolium, is reported. The computational analysis underpins that the formation of the triple helix is driven by C-H···O hydrogen bonding.     

Experimental evidences for stereo-promoted intermolecular C-H···O hydrogen bonding in solution

The ¹H NMR data and the results of DFT quantum-chemical calculations indicate stereocontrolled formation of intermolecular C-H···O hydrogen bonds in aqueous solutions of L-(2S,3S)-2-(imidazol-1-yl)-3-methylpentan-1-ol.     

Can a C-H···O interaction be a determinant of conformation?

Whether nonconventional hydrogen bonds, such as the C-H···O interaction, are a consequence or a determinant of conformation is a long-running and unresolved issue. Here we outline a solid-state and quantum mechanical study designed to investigate whether a C-H···O interaction can override the significant trans-planar conformational preferences of α-fluoroamide substituents. A profound change in dihedral angle from trans-planar((OCCF)) to cis-planar((OCCF)) observed on introducing an acceptor group for a C-H···O hydrogen bond is consistent with this interaction functioning as a determinant of conformation in certain systems. This testifies to the potential influence of the C-H···O hydrogen bond and is consistent with the assignment of this interaction as a contributor to overall conformation in both model and natural systems.     

Rapid and accurate evaluation of the binding energies and the individual N-H···O=C, N-H···N, C-H···O=C, and C-H···N interaction energies for hydrogen-bonded peptide-base complexes

The binding energies of thirty-six hydrogen-bonded peptide-base complexes, including the peptide backbone-ase complexes and amino acid side chain-base complexes, are evaluated using the analytic potential energy function established in our lab recently and compared with those obtained from MP2, AMBER99, OPLSAA/L, and CHARMM27 calculations. The comparison indicates that the analytic potential energy function yields the binding energies for these complexes as reasonable as MP2 does, much better than the force fields do. The individual N H…O=C, N H…N, C H…O=C, and C H…N attractive interaction energies and C=O…O=C, N H…H N, C H…H N, and C H…H C repulsive interaction energies, which cannot be easily obtained from ab initio calculations, are calculated using the dipole-dipole interaction term of the analytic potential energy function. The individual N H…O=C, C H…O=C, C H…N attractive interactions are about 5.3±1.8, 1.2±0.4, and 0.8 kcal/mol, respectively, the individual N H … N could be as strong as about 8.1 kcal/mol or as weak as 1.0 kcal/mol, while the individual C=O…O=C, N H…H N, C H…H N, and C H…H C repulsive interactions are about 1.8±1.1, 1.7±0.6, 0.6±0.3, and 0.35±0.15 kcal/mol. These data are helpful for the rational design of new strategies for molecular recognition or supramolecular assemblies.