Chemical bonding and molecular dynamics in inclusion compounds of fluorinated graphite according to 19F NMR spectroscopy data

In Inclusion compounds of fluorinated graphite with chlorine trifluoride C₂. xClF₃ and hexafluoro-benzene C₂F. xC₆F₆ , the guest molecules are characterized by rotational mobility and weak bonds with the host matrix. ¹⁹F NMR chemical shift tensors are determined for the fluorine nuclei of the matrix and the guest molecules, including the structurally nonequivalent fluorine atoms ofClFj molecules [δ (Fl) = −700, δ(F1) = −280; δ|| (F2) = −440, δ±(F₂) = −220ppm relative to F2]. It is shown that C-F bonds in the host matrix are close to those in aromatic fluorocarbons. Translated from Zhumal Stmktumoi Khimii, Vol. 41, No. 1, pp. 80-85, January–February, 2000.     

ESR study of the structure of intercalation compounds of fluorinated graphite and processes occurring therein using No2 and ClO2 radicals as spin probes

For intercalation compounds of fluorinated graphite at 77–300 K, the parameters of the spin Hamiltonian are determined from the angular dependence of the ESR spectra, the NO₂ and ClO₂ radicals are located, and their mobility at low temperatures is studied. At 77–200 K, vibrational and rotational motions around the oxygen-oxygen axis are defreezed. This is attributed to donor-acceptor interactions between the negatively charged oxygen atoms of NO₂ and ClO₂ radicals and the positively charged carbon atoms of fluorinated graphite. The calculated activation energies (0.35 kcal/mole for ClO₂ and 0.6 kcal/mole for NO₂) for defreezing the rotational-vibrational motions of these two radicals are close. Using NO₂ radicals as spin probes allowed us to find two types of regions in ICFG, which differ in the rate of NO₂ diffusion. These regions are supposed to be the filled and unfilled parts of graphite fluoride layers. It is attempted to explain the low pressure of the saturated vapor of the intercalate over ICFG by the presence of unfilled layers near the boundaries of ICFG flakes. Institute of Inorganic Chemistry, Siberian Branch, Russian Academy of Sciences. Translated fromZhurnal Strukturnoi Khimii, Vol. 39, No. 2, pp. 253–260, March–April, 1998.     

X-ray spectroscopic study of graphite fluoride (C2F) n intercalated with benzene

Samples of intercalated graphite fluoride of the C₂F·zR type (R is C₆H₆) before and after heating to 150 °C in a spectrometer vacuum chamber were studied by X-ray fluorescence spectroscopy. The C-Kα differential spectra of the samples mainly characterizes the electron state of carbon atoms in the benzene molecule inside the C₂F matrix. The differential spectrum is distinct from the spectrum of solid benzene by additional maxima, which indicate the interaction between the benzene molecules and the graphite fluoride matrix. Comparative analysis of the spectrum of the heated sample and those of graphite and graphite fluoride (CF) _n suggests that the layers of the C₂F matrix contain considerable regions of both completely fluorinated and graphite-like regions. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 4, pp. 705–708, April, 2000.     

The effect of CH<Subscript>3</Subscript>, F and NO<Subscript>2</Subscript> substituents on the individual hydrogen bond energies in the adenine–thymine and guanine–cytosine base pairs

The substituent effects on the geometrical parameters and the individual hydrogen bond (HB) energies of base pairs such as X–adenine–thymine (X–A–T), X–thymine–adenine (X–T–A), X–guanine–cytosine (X–G–C), and X–cytosine–guanine (X–C–G) have been studied by the quantum mechanical calculations at the B3LYP and MP2 levels with the 6–311++G(d,p) basis set. The electron withdrawing (EW) substituents (F and NO₂) increase the total binding energy (ΔE) of X–G–C derivatives and the electron donating (ED) substituent (CH₃) decreases it when they are introduced in the 8 and 9 positions of G. The effects of substituents are reversed when they are located in the 1, 5, and 6 positions of C, with exception of CH₃ in the 1 position and F in the 5 position, which in both cases the ΔE value decreases negligibly small. With minor exceptions (X=8–CH₃, 8–F, and 9–NO₂), both ED and EW substituents increase slightly the ΔE values of X–A–T derivatives. The individual HB energies (∆E _HBs) have been estimated using electron densities that calculated at the hydrogen bond critical points (HBCPs) by the atoms in molecules (AIM) method. Most of changes of individual HBs are in consistent with the ED/EW nature of substituents and the role of atoms entered H-bonding. The remarkable change is observed for NO₂ substituted derivative in each case.     

Structures and bonding patterns of nanoannular carbon clusters (C4–C20) through AIM analyses

Structures, binding energies, harmonic frequencies, dipole moments, HOMO–LUMO energy gaps and particularly atoms in molecules (AIM) analyses of some nanoannular carbon clusters (C₄–C₂₀) are investigated at B3LYP/6-31+G(d) level of theory. No correlation is found by plotting the calculated binding energies as a functional number of carbon atoms of carbon clusters. The calculated binding energies sharply increase from C₄ to C₁₀ while slowly from C₁₀ to C₂₀. The binding energies of C_4n+2 clusters including C₆, C₁₀, C₁₄, and C₁₈ have a clear increase when compared with others indicating their aromatic characters which is confirmed by results of HOMO–LUMO energy gaps and geometrical parameters. AIM analyses show that most of our carbon clusters are topologically normal (non-conflict) with stable structures. Nevertheless, the topological networks of small antiaromatic rings, C₄ and C₈, at their equilibrium geometries may change via molecular vibrations. The existence of straight bond paths in 3D molecular graphs of carbon clusters with n > 10 implies that ring strains are decreased as the ring sizes grow. Except for C₄ and C₈, the ellipticity values for the remaining carbon clusters are small indicating that the C–C bond is conserved in these clusters. Dipole moments of even-numbered structures are negligible, whereas odd-numbered ones have μ values of 0.09−0.73 D.     

DFT-PCM Study of the Bond Dissociation Energies of N-nitrosoindole Compounds in Acetonitrile

Quantum chemical calculations are used to estimate the equilibrium N–NO bond dissociation energies (BDEs) in acetonitrile (MeCN) for seven N-nitrosoindole compounds. These compounds are studied by employing the hybrid density functional theory (B3LYP, B3P86 and B3PW91) methods together with 6-31G^∗∗ basis sets. The obtained results are compared with the available experimental results. It is demonstrated that the B3PW91 method is the best of these methods to compute the bond dissociation energies of N-nitrosoindole compounds. The solvent effects on the BDEs of the N–NO bond are analyzed and it is shown that the N–NO BDEs in a vacuum, computed by the B3LYP method, are the closest to the computed values in MeCN and the average solvent effect is 4.0 kJ⋅mol⁻¹. The substituent effects on the N–NO BDEs were further analyzed and it is found that the N–NO BDE increases with increments of the Hammett constants of substituent groups on the benzene ring for N-nitrosoindole compounds, except the compound with 5-NO₂−C₈H₅N–NO. Finally, N-nitrosoindole compounds and the other NO-donors (N-nitroso compounds) are compared.     

X-ray photoelectron spectroscopy study of intercalated compounds of fluorinated graphite C2FxBr0.01·yCH3CN

The energy level structure of fluorinated graphite intercalation compounds C₂F_xBr_0.01·yCH₃CN (x = 0.49–0.87, y = 0.084–0.136) has been studied by X-ray photoelectron spectroscopy providing the information on the electronic structure of compounds in question. The analysis of variations of the binding energy of core levels C1s, F1s, and O1s opens the possibility to explore the nature of the chemical bond C-F in the fluorographite matrix with a varying degree of fluorination, as well as to model the structure of these compounds. The examination of decomposition results of spectra into components has revealed the occurrence of C-F fragments, carbon atoms not bonded directly to fluorine atoms, and “graphite-like” areas, whose contribution to the overall structure increases with the degree of matrix fluorination decreasing. The presence of oxygen was considered from the viewpoint of surface phenomena characteristic of low-temperature carbon materials.     

Determining the orientations of BrF3 and FeBr3 molecules in graphite fluoride matrices using the XANES and EXAFS polarization dependences

Synchrotron radiation was used to measure the EXAFS and XANES polarization dependences for intercalation compounds of graphite fluoride. An approach is developed which allows one to analyze the orientation of molecules of arbitrary shapes using XANES and EXAFS data. Analyzing the orientation dependences of BrK XANES spectra for the T-shaped BrF₃ molecules, we determined possible combinations and admissible ranges of angles between the normal to the graphite fluoride matrix planes and the Br−F bond directions (α=52–90°, β=27–82°) and between the normal to the matrix planes and the molecular planes (γ=27–53°). The average orientation angles obtained by the combined analysis of the EXAFS and XANES data are as follows: α=62±1.5°, β=58±1.5°, γ=45±1.5°. The interatomic distances Br−F, Br−Br, and Fe−Br are determined. It is established that thermal treatment, which recovers the X-ray diffraction pattern from the unfilled matrix, does not affect the predominant orientation of the BrF₃ molecules. This suggests that the thermally treated graphite fluoride matrix contains thin layers of ordered molecules. The absence of the polarization dependence of the spectra of FeBr₃ in graphite fluoride allows the assumption that the molecular planes are oriented with respect to the normal to the matrix planes at a “magic” angle of 35°. Institute of Inorganic Chemistry, Siberian Branch, Russian Academy of Sciences. Translated fromZhurnal Strukturnoi Khimii, Vol. 36, No. 6, pp. 1020–1029, November–December, 1995. Translated by I. Izvekova     

The relationship between properties of fluorinated graphite intercalates and matrix composition

Inclusion compounds (intercalates) of fluorinated graphite matrix with acetone (C₂F _x Br _z ·y(CH₃)₂CO, x = 0.49, 0.69, 0.87, 0.92, z ≈ 0.01) were prepared by guest substitution from acetonitrile to acetone. The kinetics of the thermal decomposition (the first stage of filling → the second stage of filling) was studied under isothermal conditions at 292–313 K. The relationship of the host matrices structure with inclusion compounds thermal properties and kinetic parameters is discussed.     

The relationship between properties of fluorinated graphite intercalates and matrix composition

Inclusion compounds (intercalates) of fluorinated graphite matrix with methylene dichloride (C₂F _x Br _z ·yCH₂Cl₂, x = 0.49, 0.69, 0.87, 0.92, z ≈ 0.01) were synthesized by guest substitution from acetonitrile to methylene dichloride. The kinetics of the thermal decomposition (the first stage of filling → the second stage of filling) was studied under isothermal conditions at 291–303 K. The relationship between the structure of host matrices with thermal properties and kinetic parameters of inclusion compounds is discussed.     

The relationship between properties of fluorinated graphite intercalates and matrix composition

Inclusion compounds: intercalates of fluorinated graphite matrix with acetonitrile (C₂F_xBr_z·yCH₃CN, x=0.92, 0.87, 0.69 and 0.49, z≈0.01) were synthesized. The kinetics of the thermal decomposition (the 1^st stage of filling→the 2^nd stage of filling) was studied under isothermal conditions. The relationship between intercalates properties and composition and structure of the matrix is discussed. The online version of the original article can be found at     

Hydrogen adsorption in defected carbon nanotubes

Recently there has been lot of interest in the development of hydrogen storage in various systems for the large-scale application of fuel cells, mobiles and for automotive uses. Hectic materials research is going on throughout the world with various adsorption mechanisms to increase the storage capacity. It was observed that physisorption proves to be an effective way for this purpose. Some of the materials in this race include graphite, zeolite, carbon fibers and nanotubes. Among all these, the versatile material carbon nanotube (CNT) has a number of favorable points like porous nature, high surface area, hollowness, high stability and light weight, which facilitate the hydrogen adsorption in both outer and inner portions. In this work we have considered armchair (5,5), zig zag (10,0) and chiral tubes (8,2) and (6,4) with and without structural defects to study the physisorption of hydrogen on the surface of carbon nanotubes using DFT calculations. For two different H₂ configurations, adsorption binding energies are estimated both for defect free and defected carbon nanotubes. We could observe larger adsorption energies for the configuration in which the hydrogen molecular axis perpendicular to the hexagonal carbon ring than for parallel to C–C bond configuration corresponding to the defect free nanotubes. For defected tubes the adsorption energies are calculated for various configurations such as molecular axis perpendicular to a defect site octagon and parallel to C–C bond of octagon and another case where the axis perpendicular to hexagon in defected tube. The adsorption binding energy values are compared with defect free case. The results are discussed in detail for hydrogen storage applications.     

Conformational properties of <Emphasis Type="Italic">ortho</Emphasis>-nitrobenzenesulfonamide in gas and crystalline phases. Intra- and intermolecular hydrogen bond

A combined gas-phase electron diffraction and quantum chemical (B3LYP/6-311+G**, B3LYP/cc-pvtz, MP2/cc-pvtz) study of molecular structure of 2-nitrobenzenesulfonamide (2-NBSA) was carried out. Quantum chemical calculations showed that 2-NBSA has four conformers, two of which are stabilized by intramolecular hydrogen bond. The latter (with the S–N bond in a close to orthogonal position around the phenyl ring and differing from each other by staggered or eclipsed positions of the N–H and S=O bonds in the SO₂NH₂ group) presented in a saturated vapor over 2-NBSA at T = 433 (3) K in commensurable amounts. Experimental internuclear distances (Ǻ) for the staggered conformer are (?): r _h1(C–H)_av. = 1.071(9), r _h1(C–C)_av. = 1.390(4), r _h1(C–S) = 1.789(8), r _h1(S=O)_av. = 1.427(6), r _h1(S–N) = 1.644(6), r _h1(N–O)_av. = 1.221(4), r _h1(C′–N) = 1.487(8), r _h1(N–H)_av. = 1.014. Calculations at B3LYP/cc-pvtz level were performed to determine the structure and the energies of the transition states between conformers. It was shown that the conformer structures of free molecule differ from those of a molecule stabilized by intermolecular hydrogen bonds in a crystal. Influence of a substituent X (X = –CH₃, –NO₂) on conformational features of the ortho-substituted benzenesulfonamide was established.     

Molecular designing and DFT investigation of novel alternating donor–acceptor dibenzo[b,d]thiophen-based systems: from monomer to polymer

The structures and properties of dibenzo[b,d]thiophene (DBT) based alternating donor–acceptor conjugated oligomers, in which thieno[3,4-b]pyrazine (TP), thieno[3,4-b]thiadiazole (TD), and [1,2,5]thiadiazolo[3,4-e]thieno[3,4-b]pyrazine (TTP) as acceptors, and their periodic polymers were investigated by the density function theory (DFT) at the B3LYP/6-31G(d) level. The bond length, electron density at bond critical points (BCPs) and nucleus-independent chemical shift (NICS) are analyzed and correlated with the conductive properties. NICS shows that the conjugation degree is increased with main chain extension. Research results show the conductive ability of compounds with 1:2 D–A ratio is better than that with 1:1 D–A ratio. The reorganization energies and energy bands also are considered. The results suggest that (BTDDBT) _n and (BTPDDBT) _n have small reorganization energy (0.163 and 0.152 eV, respectively) and quite low energy gap (0.73 and 0.56 eV, respectively), which indicate that they may be potential organic conductive materials.     

Processes of dissociative electron capture by 20-hydroxyecdysone molecules

The peculiarities of dissociative electron capture by 20-hydroxyecdysone molecules with the formation of fragment negative ions were studied. In the region of high electron energies (5–10 eV), processes of skeleton bond rupture are accompanied by the elimination of H₂O and H₂ molecules. In the region of thermal energies of electrons (≈0 eV), the mass spectrum is formed mainly by the [M−nH₂O]^.− (n=1–3) and [M−H₂−nH₂O]^.− (n=0−3) ions that are generated exclusively by the rearrangement. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 4, pp. 709–712, April, 2000.     

Recoordination of a metal ion in the cavity of a crown compound: a theoretical study 2.* Effect of the metal ion— solvent interaction on the conformations of calcium complexes of arylazacrown ethers

The effect of the local interaction of a metal ion with the solvent on the conformations of calcium complexes of arylazacrown ethers and an azacrown-containing dye was studied using the density functional method with the PBE and B3LYP functionals. The structures were studied and the interaction energies were determined for the calcium complexes with n = 1–12 water or acetonitrile molecules. It was found that the inner coordination sphere of the free Ca²⁺ cation contains six H₂O or seven MeCN molecules. The cation—acetonitrile interaction energy is higher than the cation—water interaction energy up to the moment the second solvation shell of the cation is almost complete (n = 11). The inner coordination sphere of Ca²⁺ in the macrocycle cavity contains at most three water molecules, while the fourth one is displaced to the second coordination sphere. Taking into account the local interaction with the solvent (H₂O or MeCN), the conformers of the calcium complexes of arylazacrown ethers and the azacrown-containing dye were studied. It was shown that the presence of two to four water molecules in the coordination sphere of the cation reduces the relative energies of the conformers with broken metal—nitrogen bond, thus favoring ground-state metal recoordination. For Part 1, see Ref. 1. Dedicated to Academician A.L. Buchachenko on the occasion of his 70th birthday. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1981–1992, September, 2005.     

Solvation Properties of Aliphatic Alcohol–Water and Fluorinated Alcohol–Water Solutions for Amide Molecules Studied by IR and NMR Techniques

Solvation properties of aliphatic alcohol–water and fluorinated alcohol–water solutions were probed by amide molecules as solutes using infrared (IR) and ¹H and ¹³C NMR techniques. These include four alcohols: ethanol (EtOH), 2-propanol (2-PrOH), 2,2,2-trifluoroethanol (TFE), and 1,1,1,3,3,3-hexafluoro-2-propanol (HFIP) and three amides: N-methylformamide (NMF), N-methylacetamide (NMA) and N-methylpropionamide (NMP). The hydrogen bonds of the amide carbonyl oxygen with water are gradually weakened as the alcohol content increases. This decreases in the order of HFIP > TFE ≈ 2-PrOH > EtOH. In TFE– and HFIP–water solutions, the hydrogen bond between the amide amino hydrogen and water is also gradually broken with increasing x _A. This trend is more notable in the order of NMP > NMA > NMF. The hydrophobic moieties of the amide methyl and ethyl groups are solvated by the fluoroalkyl groups of fluorinated alcohols due to the hydrophobic interaction among them. Thus, the steric hindrance generated by the solvated alkyl group of amides promotes the breaking of the hydrogen bonds between amide and water.     

Cations of halogenated methanes: adiabatic ionization energies, potential energy surfaces, and ion fragment appearance energies

The DFT-B3LYP and G3X model chemistry were used to predict the cation structures and energetics of fluorinated, chlorinated, and brominated methanes. Ion–complex structures between methylene cations and HX (X = F, Cl, Br) were found for all H-containing cations, and [CHF–FH]⁺, [CF₂–FH]⁺, [CCl₂–ClH]⁺, and [CCl₂–FH]⁺ structures are more stable than their normal tetravalent structures. Several cations should also be better described as ion–complex structures between methyl cations and halogen atoms, e.g., [CF₃–Br]⁺. Transition states connecting normal and ion–complex structures were also located, and potential energy diagrams were constructed for decomposition of methane cations and to predict the fragmentation pathways. The G3X energies were used to predict the adiabatic ionization energies (IE_as) and ion fragment appearance energies (AEs) from methanes. Many of the experimental AEs correspond to the energies of transition states instead of the thermodynamic dissociation limits. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

水合铀酰与尿嘧啶及其异构体配位体系的计算研究

运用B3LYP/6-311++G**(RLC ECP)方法研究[UO_2(Uracil)j(H_2O)k]~(2+)(Uijk,i为尿嘧啶6种异构体代号,j+k=5)配位体系的几何结构、振动光谱、结合能等性质,并用极化连续介质模型(PCM)考察了溶剂化效应。结果表明,在U1jk体系中,随着尿嘧啶配体数目的逐渐增加,U-Ouracil配位键和U=O键的键长逐渐伸长,水溶液中U=O键的伸缩振动频率逐渐减小,配离子的总结合能呈增加趋势,且气相中的线性拟合效果较好。在Ui14体系中,U-Ouracil的键长与U-OH_2的键长整体成负相关,与U=O键的伸缩振动频率成正相关,结合能最大的配离子并不是由能量最低的尿嘧啶异构体生成的。电子密度拓扑分析表明U-Ouracil键和U-OH_2键具有离子键性质。原子电荷分析揭示在配位过程中是由配体片段向铀酰发生了电子转移,且尿嘧啶的电荷转移量与该配体数目成负相关,其中Ur6异构体向铀酰离子转移电子数最多。     

Theoretical studies on anionic clusters of sulfate anions and carbon dioxide, SO 4?1/?2 (CO2)n, n?=?1?4

Geometry optimizations were performed on monoanionic and dianionic clusters of sulfate anions with carbon dioxide, SO₄^−1/−2(CO₂) _n , for n = 1–4, using the B3PW91 density functional method with the 6-311 + G(3df) basis set. Limited calculations were carried out with the CCSD(T) and MP2 methods. Binding energies, as well as adiabatic and vertical electron detachment energies, were calculated. No covalent bonding is seen for monoanionic clusters, with O₃SO–CO₂ bond distances between 2.8 and 3.0 ?. Dianionic clusters show covalent bonding of type [O₃S–O–CO₂]⁻², [O₃S–O–C(O)O–CO₂]⁻², and [O₂C–O–S(O₂)–O–CO₂]⁻², where one or two oxygens of SO₄⁻² are shared with CO₂. Starting with n = 2, the dianionic clusters become adiabatically more stable than the corresponding monoanionic ones. Comparison with SO₄^−1/−2(SO₂) _n and CO₃^−1/−2(SO₂) _n clusters, the binding energies are smaller for the present SO₄^−1/−2(CO₂) _n systems, while stabilization of the dianion occurs at n = 2 for both SO₄⁻²(CO₂) _n and SO₄⁻²(SO₂) _n , but only at n = 3 for CO₃⁻²(SO₂) _n .