Theoretical calculation of the steric effects of ortho substituents by the AM1 method

The AM1 calculation was done for ortho-substituted toluenes (o-X-C₆H₄-CH₃) and ortho-substituted tert-butylbenzenes (o-X-C₆H₄-t-Bu). The difference in the calculated heat of formation between o-X-C₆H₄-CH₃ and o-X-C₆H₄-t-Bu was used as a theoretical steric index for ortho-X. The correlation of this theoretical steric index with the empirical steric parameter sets such as our recently defined E_s(AMD) and the Taft–Kutter–Hansch (TKH) E_s was examined. In spite of the simplicity of the model system, the theoretical index was linear with the E_s(AMD) constant with a correlation coefficient of r = 0.972 for 17 substituents of various structures. Including the phenyl group, the correlation with the TKH E_s constant was r = 0.948. The theoretically calculated index was shown to serve as a measure of the ortho steric effect.     

Combined analysis of microwave and infrared spectra of methyl iodide: rotational and l-type doubling constants of the v5, v3+v6 and v2 states

The rotational constant B and the l-type doubling constant q were determined for the v₅, v₃+v₆ and v₂, states of CH₂I from the microwave transition frequencies, in combination with the infrared data previously reported. Since these vibrational states were coupled through the Fermi resonance and the xy-type E-E and A₁-E Coriolis resonances, the analysis was made by setting up and solving the complete form of the secular determinants of the energy matrices. The rotational and l-type doubling constants were determined as B₅, = 0.250 173 cm^?1, B₃₆ = 0.247 600 cm^?1, B₂ = 0.249 369 cm^?1, q₅ = ?0.000 027 cm^?1 and q₃₆ = ?0.000 179 cm^?1, which are unperturbed by Fermi and Coriolis interactions. Other band constants for v₅ and v₃+v₆ were also refined in accordance with the new values of B₅ and B₃₆. The present study indicated that the combined analysis of microwave and infrared spectral data was useful for the precise determination of vibration-rotation, levels in the perturbed system.     

Isotachophoretic determination of mobility and pKa by means of computer simulation : V. Evaluation of mo and pKa of twenty-eight dipeptides and assessment of separability

Isotachophoretic qualitative indices, R_E, for twenty-eight dipeptides were measured in the range pH 7.4–9.6. The absolute mobility, m_o, and pK_a values were evaluated by the use of the least-squares method, utilizing a simulation of the isotachophoretic steady state. The m_o values were newly evaluated and the pK_a values were in good agreement with literature values. By comparison of the evaluated m_o and pK_a values of the dipeptides with those of the constituent amino acids, simple relationships were found which may be used to estimate the m_o and pK_a values of other dipeptides. The separability of the dipeptides was also evaluated by considering the differences between their simulated effective mobilities. It is concluded that isotachophoresis is very convenient for the separation of dipeptides and their constituent amino acids.     

Magnetism and structure of graphene nanodots with interiors modified by boron, nitrogen, and charge

The properties (geometry, spin, and charge distribution) of a series of flat hexagonal zigzag edged graphene nanodots (GNDs), with interiors modified by centrally located substituent atoms boron and nitrogen and by positive and negative charge, have been calculated using ab initio density functional theory. The doped series X-GND has the stoichiometry C(6m(2)-1)XH(6m), zigzag size index m = 2, 4, 6, 8, 10 and substituent X = B or N. The undoped parents C(6m(2) )H(6m) with m ≤ 8 have spin paired ground states and the parent m = 10 has a spin polarized singlet ground state with edges that alternate α- and β-spin. The spin on the substituent atom decreases to zero with size index m and magnetization builds on the edges of all the X-GND. This demonstrates translocation of substituent spin and a proximity or directional effect for small m as the edges show different degrees of magnetization. For the largest X-GND (m = 10) the magnetization on edges resembles the calculated triplet S = 1(a) configuration of the parent (four edge spins up and two down) and has a higher apparent symmetry than the C(2v) point group of X-GND. For charged (m = 10) GNDs the edge magnetization has strength comparable to the parent on two parallel edges and weak on the other four in a perimeter pattern that resembles the triplet S = 1(b) configuration of the undoped parent and not the ground configuration of the isoelectronic X-GND molecule. Many of the results can be interpreted by simple Kekule? valence bond structures for an unpaired spin on a network where the substituent site group symmetry is not compatible with the perimeter. A deeper understanding is provided by the properties of the Kohn-Sham orbitals. The calculations of the X-doped GNDs reveal limitations in the use of the hex-radical hypothesis of the parent ground state to systems where foreign atoms lower symmetry and perturb the π- and σ-bond manifolds.     

Dynamical structure of peptide molecules: Fourier transform microwave spectroscopy and ab initio calculations of N-methylformamide

Rotational spectra of both trans and cis forms of the N-methylformamide normal as well as deuterated (HCONDCH₃, referred to as N-D) species were observed by Fourier transform microwave spectroscopy in the frequency region from 5 to 118 GHz. Samples were prepared in the form of a beam by a pulsed jet valve maintained at 50 °C and were introduced in a high-vacuum cavity cell, with either Ne or Ar as a carrier gas at a backing pressure of 100 kPa. The observed spectra were analyzed to yield molecular parameters including rotational constants and barrier, V₃, to CH₃ internal-rotation: 53.9 (6) and 301 (4) cm⁻¹ for the trans and cis forms of the normal species, respectively, and 41.9 (6) and 309 (4) cm⁻¹ for the trans and cis forms of the N-D species, respectively. Spectra of four trans isotopologues with ¹³C, ¹⁵N, or ¹⁸O singly-substituted in the internal-rotation A state were observed and analyzed to derive the r_s structure of the trans form. For comparison with the experimental data, ab initio calculations were carried out at MP2/6-31G∗∗ level to derive molecular structure, potential barrier to CH₃ internal rotation, and the energy difference between the cis and trans forms. An extensive coupling was found between the CH₃ internal rotation and N-H out-of-plane bending, suggesting that the potential function for the CH₃ internal-rotation deviates considerably from a simple cos(3α) form. The effects of the V₆ term is briefly discussed.     

Molecular dynamics simulations of structural disordering and forming defects in a milling process for selenium

In our previous paper, structural changes of selenium powders ground by a planetary ball mill at various rotational speeds were investigated for the nanostructural modification of particles using mechanical grinding process. The experimental results indicated that the amorphisation of Se by grinding accompanies lattice strain, and the lattice strain arises from impact energy which is more than an energy related to intermolecular interaction. In this paper, molecular dynamics simulations of selenium have been carried out under compressing conditions of various pressure strengths for obtaining information of the lattice strain at atomic level. Then, dynamical behaviour of atomic configuration has been discussed in this process. The structural disordering and formation of the structural defects were estimated by deviations of bond length and angle and the number of created defects before and after compressing from simulated results. The disordering took place during compressing at various pressure strengths, and the disordered atoms return to their initial positions at lower pressure. Stable disordered state and defects after the compression can however remain by compression at more than a certain pressure strength mainly associated with binding energy of selenium.     

Clathrate-formation mediated adsorption of methane on Cu-complex crystals

We measured adsorption and desorption isotherms of methane on [Cu(4, 4'-bipyridine)2(BF4)2] (LPC) at 258, 273, and 303 K. Adsorption proceeds almost vertically at a definite pressure, which is named gate pressure. The lower the measurement temperature, the smaller the gate pressure. The temperature dependence of the gate pressure is expressed by the Clapeyron-Clausius equation, giving a thermodynamic evidence on the clathrate formation between the Cu complex and methane.     

Effects of hydrophilic chain length on the characteristics of the micelles of pentaoxyethylene n-decyl C10E5 and hexaoxyethylene n-decyl C10E6 ethers

Wormlike micelles of nonionic surfactants pentaoxyethylene decyl ether C(10)E(5) and hexaoxyethylene decyl ether C(10)E(6) in dilute aqueous solutions were characterized by static (SLS) and dynamic light scattering (DLS) experiments at several temperatures T below the critical points. The SLS results were analyzed with the aid of the molecular thermodynamic theory for SLS from micelle solutions formulated with the wormlike spherocylinder model, thereby yielding the molar mass M(w) of the micelles as a function of c and the cross-sectional diameter d of 2.6 nm for both C(10)E(5) and C(10)E(6) micelles. It has been found that the micelles grow in size with increasing c and T, following the relation M(w) proportional, variant c(1/2) in conformity with the theoretical prediction for highly extended polymerlike micelles. The hydrodynamic radius R(H) of the micelles as a function of M(w) was found to be also well described by the corresponding theories for the wormlike spherocylinder model. The results of the stiffness parameter lambda(-1) show that both micelles are rather stiff compared with those formed with other polyoxyethylene alkyl ethers C(i)E(j) but far from rigid rods. The values of the spacing s between two adjacent hexaoxyethylene chains on the micellar surface were found to be substantially the same for both micelles.