Crystal structure of a methylamine sorption complex of fully dehydrated fully Ca2+ -exchanged zeolite X, |Ca46(CH3NH2)16|[Si100Al92O384]-FAU

The structure of a methylamine sorption complex of fully dehydrated fully Ca2+-exchanged zeolite X, |Ca46(CH3NH2)16|[Si100Al92O384]-FAU, has been determined in the cubic space group Fd3 at 21(1) degrees C (a = 24.994(4) angstroms) by single-crystal X-ray diffraction techniques. The crystal was prepared by ion exchange in a flowing stream of 0.05 M aqueous Ca(NO3)2 for 3 days, followed by dehydration at 480 degrees C and 2 x 10(-6) Torr for 2 days, and exposure to 160 Torr of zeolitically dry methylamine gas at 21(1) degrees C. The structure was determined in this atmosphere and was refined, using the 739 reflections for which I > 0, to the final error indices R1 = 0.152 and R2 = 0.061. In this structure, Ca2+ ions occupy three crystallographic sites. Sixteen Ca2+ ions fill the octahedral site at the centers of hexagonal prisms (Ca-O = 2.429(7) angstroms). The remaining 30 Ca2+ ions are found at two nonequivalent sites II (in the supercages) with occupancies of 14 and 16 ions. Each of these Ca2+ ions coordinates to three framework oxygens, either at 2.296(7) or 2.334(7) angstroms, respectively. Sixteen methylamine molecules have been sorbed per unit cell, two per supercage. Each coordinates to one of the latter 16 site-II Ca2+ ions: N-Ca = 2.30(9) angstroms. The imprecisely determined N-C bond length, 1.48(23) angstroms, differs insignificantly from that in methylamine(g), 1.474(5) angstroms. The positions of the hydrogen atoms were calculated. One of the amino hydrogen atoms hydrogen bonds to a 6-ring oxygen, and the other forms a bifurcated hydrogen bond to two other 6-ring oxygens. The methyl group does not hydrogen bond to anything.     

Hydration of sodium, potassium, and chloride ions in solution and the concept of structure maker/breaker

Neutron diffraction data with hydrogen isotope substitution on aqueous solutions of NaCl and KCl at concentrations ranging from high dilution to near-saturation are analyzed using the Empirical Potential Structure Refinement technique. Information on both the ion hydration shells and the microscopic structure of the solvent is extracted. Apart from obvious effects due to the different radii of the three ions investigated, it is found that water molecules in the hydration shell of K+ are orientationally more disordered than those hydrating a Na+ ion and are inclined to orient their dipole moments tangentially to the hydration sphere. Cl- ions form instead hydrogen-bonded bridges with water molecules and are readily accommodated into the H-bond network of water. The results are used to show that concepts such as structure maker/breaker, largely based on thermodynamic data, are not helpful in understanding how these ions interact with water at the molecular level.     

The structure of the mixed OH + H2O overlayer on Pt[111

The structure of the mixed p(3 x 3)-(3OH + 3H2O) phase on Pt[111] has been investigated by low-energy electron diffraction-IV structure analysis. The OH + H2O overlayer consists of hexagonal rings of coplanar oxygen atoms interlinked by hydrogen bonds. Lateral shifts of the O atoms away from atop sites result in different O-O separations and hexagons with only large separations (2.81 and 3.02 angstroms) linked by hexagons with alternating separations of 2.49 and 2.813.02 angstroms. This unusual pattern is consistent with a hydrogen-bonded network in which water is adsorbed in cyclic rings separated by OH in a p(3 x 3) structure. The top-most two layers of the Pt atoms relax inwards with respect to the clean surface and both show vertical buckling of up to 0.06 angstroms. In addition, significant shifts away from the lateral bulk positions have been found for the second layer of Pt atoms.     

Equatorial and apical solvent shells of the UO2 2+ ion

First principles molecular dynamics simulations of the hydration shells surrounding UO(2)(2+) ions are reported for temperatures near 300 K. Most of the simulations were done with 64 solvating water molecules (22 ps). Simulations with 122 water molecules (9 ps) were also carried out. The hydration structure predicted from the simulations was found to agree with very well-known results from x-ray data. The average U=O bond length was found to be 1.77 A. The first hydration shell contained five trigonally coordinated water molecules that were equatorially oriented about the O-U-O axis with the hydrogen atoms oriented away from the uranium atom. The five waters in the first shell were located at an average distance of 2.44 A (2.46 A, 122 water simulation). The second hydration shell was composed of distinct equatorial and apical regions resulting in a peak in the U-O radial distribution function at 4.59 A. The equatorial second shell contained ten water molecules hydrogen bonded to the five first shell molecules. Above and below the UO(2)(2+) ion, the water molecules were found to be significantly less structured. In these apical regions, water molecules were found to sporadically hydrogen bond to the oxygen atoms of the UO(2)(2+), oriented in such a way as to have their protons pointed toward the cation. While the number of apical waters varied greatly, an average of five to six waters was found in this region. Many water transfers into and out of the equatorial and apical second solvation shells were observed to occur on a picosecond time scale via dissociative mechanisms. Beyond these shells, the bonding pattern substantially returned to the tetrahedral structure of bulk water.     

Hydrogen and higher shell contributions in Zn2+, Ni2+, and Co2+ aqueous solutions: an X-ray absorption fine structure and molecular dynamics study

A detailed investigation of the hydration structure of Zn2+, Ni2+, and Co2+ in water solutions has been carried out combining X-ray absorption fine structure (EXAFS) spectroscopy and Molecular Dynamics (MD) simulations. The first quantitative analysis of EXAFS from hydrogen atoms in 3d transition metal ions in aqueous solutions has been carried out and the ion-hydrogen interactions have been found to provide a detectable contribution to the EXAFS spectra. An accurate determination of the structural parameters associated with the first hydration shell has been performed and compared with previous experimental results. No evidence of significant contributions from the second hydration shell to the EXAFS signal has been found for these solutions, while the inclusion of the hydrogen signal has been found to be important in performing a quantitative analysis of the experimental data. The high-frequency contribution present in the EXAFS spectra has been found to be due to multiple scattering (MS) effects inside the ion-oxygen first coordination shell. MD has been used to generate three-body distribution functions from which a reliable analysis of the MS contributions to the EXAFS spectra of these systems has been carried out.     

Ions in water: the microscopic structure of concentrated hydroxide solutions

Neutron-diffraction data on aqueous solutions of hydroxides, at solute concentrations ranging from 1 solute per 12 water molecules to 1 solute per 3 water molecules, are analyzed by means of a Monte Carlo simulation (empirical potential structure refinement), in order to determine the hydration shell of the OH- in the presence of the smaller alkali metal ions. It is demonstrated that the symmetry argument between H+ and OH- cannot be used, at least in the liquid phase at such high concentrations, for determining the hydroxide hydration shell. Water molecules in the hydration shell of K+ orient their dipole moment at about 45 degrees from the K+-water oxygen director, instead of radially as in the case of the Li+ and Na+ hydration shells. The K+-water oxygen radial distribution function shows a shallower first minimum compared to the other cation-water oxygen functions. The influence of the solutes on the water-water radial distribution functions is shown to have an effect on the water structure equivalent to an increase in the pressure of the water, depending on both ion concentration and ionic radius. The changes of the water structure in the presence of charged solutes and the differences among the hydration shells of the different cations are used to present a qualitative explanation of the observed cation mobility.     

Weakly coordinating anions HA2-generated from oxoanions A- and their conjugate acids. Coordination equilibria,ionic conductivities,and the structures of [Cu2(H(CH3SO3)2)4]n and [Cu(CO)(H(CF3CO2)2)]2

The coordination or ion pairing of the hydrogen-bonded anions H(CF3CO2)2- and H(CH3SO3)2- to NEt4+, Li+, Cu+, and/or Cu2+ was investigated. The structure of [Cu2(H(CH3SO3)2)4]n consists of centrosymmetric dimeric moieties that contain two homoconjugated (CH3SO2O-H...OSO2CH3)- anions per Cu2+ ion, forming typical Jahn-Teller tetragonally elongated CuO6 coordination spheres. The oxygen atoms involved in the nearly linear O-H...O hydrogen bonds (O...O approximately 2.62 A) are not coordinated to the Cu2+ ions. The structure of Cu2(CO)2(H(CF3-CO2)2)2 consists of pseudo-C2-symmetric dimers that contain one homoconjugated (CF3COO-H...OCOCF3)- anion per Cu+ ion, forming highly distorted tetrahedral Cu(CO)O3 coordination spheres. Three of the four oxygen atoms in each hydrogen-bonded H(CF3CO2)2- anion are coordinated to the Cu+ ions, including one of the oxygen atoms in each O-H...O hydrogen bond (O...O approximately 2.62 A). Infrared spectra (v(CO) values) of Cu(CO)(CF3CO2) or Cu(CO)(CH3SO3) dissolved in acetonitrile or benzene, with and without added CF3COOH or CH3SO3H, respectively, demonstrate that HA2- anions involving carboxylates or sulfonates are more weakly coordinating than the parent anions RCO2- and RSO3-. Direct current conductivities of THF solutions of Li(CF3CO2) containing varying concentrations of added CF3COOH further demonstrate that Li+ and NEt4+ ion pair much more weakly with H(CF3CO2)2- than with CF3CO2-.     

Ions in water: the microscopic structure of a concentrated HCl solution

A neutron diffraction experiment with isotopic H/D substitution on a concentrated HCl/H2O solution is presented. The full set of partial structure factors is extracted, by combining the diffraction data with a Monte Carlo simulation. This allows us to investigate both the changes of the water structure in the presence of ions and their solvation shell, overcoming the limitations of standard diffraction experiments. It is found that the interaction with the solutes affects the tetrahedral network of hydrogen bonded water molecules, in a manner similar to the application of an external pressure to pure water, although HCl seems less effective than other solutes, such as NaOH, at the same concentration. Consistent with experimental and theoretical data, the number of water molecules in the solution is not sufficient to completely dissociate the acid molecule. As a consequence, both dissociated H+ and Cl- ions and undissociated HCl molecules coexist in the sample, and this mixture is correctly reproduced in the simulation box. In particular, the hydrated H+ ions, forming a H3O+ complex, participate in three strong and short hydrogen bonds, while a well-defined hydration shell is found around the chlorine ion. These results are not consistent with the findings of early diffraction experiments on the same system and could only be obtained by combining high quality experimental data with a proper computer simulation.     

A new structural motif for biological iron: iron K-edge XAS reveals a [Fe4-mu-(OR)5(OR)(9-10)] cluster in the ascidian Perophora annectens

The Phlebobranch ascidian Perophora annectens surprisingly exhibited a biological Fe/V ratio of approximately 15:1 on multichannel X-ray fluorescence analysis of two independent collections of organisms. Iron K-edge X-ray absorption spectroscopy (XAS) indicated a single form of iron. The XAS K-edge of the first collection of blood cells was shifted approximately +1 eV relative to that of the second, indicating redox activity with average iron oxidation states of 2.67+ and 2.60+. The first-derivative iron XAS K-edge features at 7120.5, 7124, and 7128 eV resembled the XAS of magnetite but not of ferritin or of dissolved Fe(II) or Fe(III). Pseudo-Voigt fits to blood-cell iron K-edge XAS spectra yielded 12.4 integrated units of preedge intensity, indicating a noncentrosymmetric environment. The non-phase-corrected extended X-ray absorption fine structure (EXAFS) Fourier transform spectrum showed a first-shell O/N peak at 1.55 angstroms and an intense Fe-Fe feature at 2.65 angstroms. Fits to the EXAFS required a split first shell with two O at 1.93 angstroms and three O at 2.07 angstroms, consistent with terminal and bridging alkoxide ligands, respectively. More distant shells included three C at 2.87 angstroms, two Fe at 3.08 angstroms, three O at 3.29 angstroms, and one Fe at 3.8 angstroms. Structural models consistent with these findings include a [Fe4(OR)13](2-/3-) broken-edged Fe4O5 cuboid or a [Fe4(OR)14](3-/4-) "Jacob's ladder" with three edge-fused Fe2(OR)2 rhombs. Either of these models represents an entirely new structural motif for biological iron. Vanadium domination of blood-cell metals cannot be a defining trait of Phlebobranch tunicates so long as P. annectens is included among them.     

Hydration of Hg2+ in aqueous solution studied by neutron diffraction with isotopic substitution

The structural parameters of Hg2+ hydration were studied in 0.225 mol/L solutions of Hg2+ in DNO3/D2O by means of neutron diffraction with isotopic substitution of 199Hg for natHg. It was found that Hg2+ is hydrated by a first solvation shell of six water molecules. The observed Hg-O and Hg-H distances are equal to 2.48+/-0.05 and 3.08+/-0.05 A, respectively. The angle phi between the plane of the water molecule and the cation-water oxygen axis is approximately 35 degrees . The solvation of Hg2+ therefore mimics very closely that of Ca2+ (the Ca-O and Ca-H distances are 2.40 and 3.03 A, respectively) and helps to account for the extreme toxicity of mercury(II). We note also that the Hg-O distance obtained in the neutron diffraction experiment is larger by approximately 0.1 A than that obtained by X-ray diffraction. This difference is consistent with a shift of the oxygen electron density toward the mercury cation due to the covalency of the Hg-O interaction.     

浓度及冷冻鄄解冻处理对CuCl2水溶液中Cu2+区域结构的影响

应用扩展X射线吸收精细结构(EXAFS)光谱研究了CuCl2水溶液中Cu2+的区域环境结构, 通过测定CuCl2水溶液在不同浓度条件下及冷冻-解冻(FT)处理前后Cu K边EXAFS 吸收谱, 研究了浓度及冷冻-解冻处理对Cu2+第一配位层结构的影响. EXAFS实验结果表明, CuCl2水溶液中Cu2+第一配位层距离中心原子Cu最近邻原子为O原子, 配位数介于3.0-4.3之间, Cu—O键长在0.192-0.198 nm 之间, 这种结构与Cu2+的Jahn-Teller效应有关. 不同浓度的CuCl2水溶液中Cu2+的区域环境结构有很大不同, 随着CuCl2水溶液浓度的升高, Cu2+第一配位层配位数减小, Cu—O键伸长. 结构参数拟合结果证实冷冻-解冻处理对Cu2+的区域环境结构有影响, CuCl2溶液经冷冻-解冻处理后, Cu2+第一配位层配位数变大, 热无序度增加.     

Tetranuclear manganese(II) complexes of thiacalixarene macrocycles with trigonal prismatic six-coordinate geometries: synthesis, structure, and magnetic properties

Two tetranuclear manganese(II) complexes [Mn(II)4(thiaS)2] (1) and [Mn(II)4(thiaSO)2] (2) have been synthesized under solvothermal conditions in methanol with p-tert-butylthiacalix[4]arene (thiaS) and p-tert-butylsulfinylthiacalix[4]arene (thiaSO). For both complexes, the structure has been established from single-crystal X-ray diffraction. [Mn4(thiaS)2].H2O (1) crystallizes in the orthorhombic Immm (No. 71) space group with the following parameters: a = 18.213 (5) angstroms, b = 19.037 (5) angstroms, c = 29.159 (5) angstroms, V = 10110 (4) angstroms3, and Z = 4. [Mn4(thiaSO)2].H2O (2) crystallizes in the monoclinic C2/m (No. 12) space group with the following parameters: a = 33.046(1) angstroms, b = 19.5363 (8) angstroms, c = 15.7773 (9) angstroms, beta = 115.176 (2) degrees, V = 9218.3 (8) angstroms3, and Z = 4. The two complexes are neutral and are best described as manganese squares sandwiched between two thiacalixarene macrocycles. In both complexes, each manganese center is six-coordinated in a trigonal prismatic geometry with four phenoxo oxygen atoms plus two sulfur atoms for 1 or two oxygen atoms from SO groups for 2. The two tetranuclear complexes exhibit identical magnetic behaviors resulting from antiferromagnetic interactions between the four manganese centers. The simulation of the magnetic susceptibility was done considering a single exchange-coupling constant between the manganese(II) ions, J (H = -J(S1S2 + S2S3 + S3S4 + S1S4)). The best fits give the same result for the two complexes: g = 1.94 and J = -5.57 cm(-1).     

Exploration of the Ca2+ interaction modes of the nifedipine calcium channel antagonist.

A comprehensive study is carried out using quantum chemical computation and molecular dynamics (MD) simulations to gain insight into the interaction between Ca(2+) ions and the most important class of calcium channel antagonists--nifedipine. First, the chelating structures and energetic characters of nifedipine-Ca(2+) in the gas phase are explored, and 25 isomers are found. The most favorable chelating mode is a tridentate one, that is, Ca(2+) binds to two carbonyl O atoms and one nitryl O atom, where Ca(2+) is above the plane of the three O atoms to form a pyramidal structure. Accurate geometric structures, relative stabilities, vertical and adiabatic binding energies, and charge distributions are discussed. The differences in the geometries and energies among these isomers are analyzed from the contributions of chelating sites, electrostatics and polarizations, steric repulsions, and charge distributions. The interconversions among isomers with similar geometries and energies are also investigated because of the importance of the geometric transformation in the biological system. Furthermore, certain numbers of water molecules are added to the nifedipine-Ca(2+) system to probe the effect of water. A detailed study is performed on the hydrated geometries on the basis of the most stable isomer 1. Stepwise hydration can weaken the nifedipine-Ca(2+) interaction, and the chelating sites of nifedipine are gradually replaced by the added water molecules. Hexacoordination is found to be the most favorable geometry no matter how many water molecules were added, which can be verified by the MD simulations. The transfer of water molecules from the inner shell to the outer shell is also supported by MD simulations of the hexahydrated complexes.     

Atomistic simulation of nafion membrane. 2. Dynamics of water molecules and hydronium ions

We have performed a detailed and comprehensive analysis of the dynamics of water molecules and hydronium ions in hydrated Nafion using classical molecular dynamics simulations with the DREIDING force field. In addition to calculating diffusion coefficients as a function of hydration level, we have also determined mean residence time of H(2)O molecules and H(3)O(+) ions in the first solvation shell of SO(3)(-) groups. The diffusion coefficient of H(2)O molecules increases with increasing hydration level and is in good agreement with experiment. The mean residence time of H(2)O molecules decreases with increasing membrane hydration from 1 ns at a low hydration level to 75 ps at the highest hydration level studied. These dynamical changes are related to the changes in membrane nanostructure reported in the first part of this work. Our results provide insights into slow proton dynamics observed in neutron scattering experiments and are consistent with the Gebel model of Nafion structure.     

Reactions of POxCly- ions with H and H2 from 298 to 500 K

Rate constants and product branching ratios for POxCly- ions reacting with H and H2 were measured in a selected ion flow tube (SIFT) from 298 to 500 K. PO2Cl-, PO2Cl2-, POCl2-, and POCl3- were all unreactive with H2, having a rate constant with an upper limit of <5 x 10(-12) cm3 s(-1). PO2Cl2- did not react with H atoms either, having a similar rate constant limit of <5 x 10(-12) cm3 s(-1). The rate constants for PO2Cl-, POCl2-, and POCl3- reacting with H showed no temperature dependence over the limited range of 298-500 K and were approximately 10-20% of the collision rate constant. Cl abstraction by H to form HCl was the predominant product channel for PO2Cl-, POCl2-, and POCl3-, with a small amount of Cl- observed from POCl2- + H. Reactions of O2 and O3 with the POCl- products ions from the reaction of POCl2- + H were observed to yield predominantly PO3- and PO2-, respectively. POCl- reacted with O2 and O3 with rate constants of 8.9 +/- 1.1 x 10(-11) and 5.2 +/- 3.3 x 10(-10) cm3 s(-1), respectively. No associative electron detachment in the reactions with H atoms was observed with any of the reactant ions; however, detachment was observed with a PO- secondary product ion at high H atom concentrations. Results of new G3 theoretical calculations of optimized geometries and energies for the products observed are discussed.     

Dimethylsulfoxid‐Komplexe von Beryllium(II)‐chlorid. Kristallstrukturen von [Be(OSMe2)4]Cl2, [Be(OSMe2)3(H2O)]Cl2 und [Be(OSMe2)2(H2O)2]Cl2

Dimethylsulfoxide Complexes of Beryllium(II) Chloride. Crystal Structures of [Be(OSMe₂)₄]Cl₂, [Be(OSMe₂)₃(H₂O)]Cl₂ and [Be(OSMe₂)₂(H₂O)₂]Cl₂ Single crystals of the mixed ligand complexes [Be(OSMe₂)₃(H₂O)]Cl₂ ( 2 ) and [Be(OSMe₂)₂(H₂O)₂]Cl₂ ( 3 ) were obtained from saturated solutions of [Be(OSMe₂)₄]Cl₂ ( 1 ) in acetonitrile and dichloromethane, respectively, in the presence of traces of water, while single crystals of 1 were available by reaction of the carbodiphosphorane complex [BeCl₂{C(PPh₃)₂}] with DMSO/toluene solution. All complexes are characterized by X‐ray diffraction and IR spectroscopy. 1 : Space group Pbca, Z = 8, lattice dimensions at 193 K: a = 962.4(1), b = 1888.8(2), c = 2115.8(2) pm, R₁ = 0.0344. 1 consists of [Be(OSMe₂)₄]²⁺ cations with distorted tetrahedral coordination of the oxygen atoms of the DMSO molecules with Be–O distances of 161.9 pm on average, and chloride ions. 2 : Space group , Z = 2, lattice dimensions at 193 K: a = 903.9(2), b = 925.2(3), c = 1121.3(3) pm, α = 93.65(3)°, β = 108.03(3)°, γ = 115.20(3)°, R₁ = 0.0472. 3 : Space group , Z = 2, lattice dimensions at 173 K: a = 788.2(2), b = 801.6(2), c = 1070.7(3) pm, α = 86.66(2)°, β = 83.80(2)°, γ = 71.00(2)°, R₁ = 0.0699. 2 and 3 also form dications with distorted tetrahedral coordination of the Be²⁺ ions by the oxygen atoms of DMSO and water molecules, respectively. The chloride ions are associated by strong hydrogen bonds O–H···Cl to give three‐dimensional networks.     

Carboxylate binding to be(2+) in proteins and influence of the dielectric environment

To gain insight into the interaction of Be2+ ions with negatively charged protein residues, the free energy changes associated with the replacement of water molecules in the first hydration shell of with one and two acetate anions were computed for the gas phase reactions using ab initio methods at the MP2 and DFT-B3LYP computational levels. Both unidentate and bidentate modes of coordination of the carboxylate group with the Be2+ ion are considered. Continuum dielectric calculations were then performed to estimate the corresponding free energy changes in several environments of varying dielectric strength. Environments with dielectric constants of 2 and 4, which represent a protein interior, and 78, which corresponds to water, were used. It is found that the free energy changes for the substitution reactions decrease in magnitude with increasing dielectric strength, in agreement with similar results reported for Mg2+, Ca2+, and Zn2+ (Dudev et al. J. Phys. Chem. B 2000, 104, 3692). However, unlike Mg2+, Ca2+, and Zn2+, the free energy change for single-anion or concerted two-anion substitution reactions with remains negative and indicates the reactions are still favorable in the high dielectric aqueous environment. It is also found that the unidentate mode of binding is favored over the bidentate mode, and this is attributed, in part, to the introduction of hydrogen bonds between one carboxylate oxygen and a water molecule within the cluster when unidentate binding with Be2+ is involved.     

Diffraction of X-rays and hydration phenomena in aqueous solutions of Mg(NO3)2

The ionic coordination of Mg(NO₃)₂ in aqueous solutions has been investigated by X-ray diffraction. The experimental correlation functions appear to be characterized by the hydration of the cation. Satisfactory agreement with the experimental data has been reached through a model in which: (i) the nitrate ions do not produce any structuring effect in their neighbourhood; (ii) the Mg²⁺ ions possess an inner hydration shell of six water molecules and a second coordination shell.     

Revisiting the structure and dynamics of hydrated Cd2+ in aqueous solutions: Insights from the RI-SCS-MP2/MM molecular dynamics simulation

The spin component scale MP2/molecular mechanics molecular dynamics simulation investigated the hydration shell formation and hydrated Cd²⁺ dynamics in the water environment. At the first hydration shell, six water molecules with 2.27 Å for the average distance between water and Cd²⁺. Dynamical properties were analyzed by computing the water molecule's mean residence time (MRT) in its first and second hydration shells. The MRT of each shell was determined to be 31.8 and 1.92 ps, suggesting the strong influence of Cd²⁺ in the first hydration shell. The second shell was labile, with an average number of water molecules being 18. Despite the strong interaction between Cd²⁺ and water molecules in the first shell, the influence of ions in the second hydration shell remained weak.