A new supramolecular cocrystal of 2-amino-3-bromopyridine with 4-methylbenzoic acid: Synthesis,structural, spectroscopic characterization and comparative theoretical studies

The 1:1 cocrystal of 2-amino-3-bromopyridine (2A3BP) with 4-methylbenzoic acid (4MBA) has been prepared by slow evaporation method in methanol, which was crystallized in monoclinic P2₁/c space group having two molecules in the asymmetric unit. The cocrystal has been characterized by single crystal X-ray analysis, FTIR, ¹H NMR, ¹³C NMR, and Powder XRD. Theoretical investigations have been calculated by HF and density function (B3LYP) method with the 6-311+G(d,p) basis set. The vibrational frequencies together with the ¹H NMR and ¹³C NMR chemical shifts have been calculated on the fully optimized geometry of 1. Theoretical calculations of bond parameters, harmonic vibration frequencies, and isotropic chemical shifts are in good agreement with the experimental results. Solvent-free formation of these cocrystal was confirmed by powder X-ray diffraction analysis. The crystal structure was stabilized by N_pyridine—H···O = C, C = O—H···N_pyridine and C—H···Br hydrogen bonding interactions.     

First-principles characterisation of the pressure-dependent elastic anisotropy of SnO2 polymorphs

Using DFT calculations, this study investigates the pressure-dependent variations of elastic anisotropy in the following SnO₂ phases: rutile-type (tetragonal; P4₂/mnm), CaCl₂-type (orthorhombic; Pnnm)-, α-PbO₂-type (orthorhombic; Pbcn)- and fluorite-type (cubic; Fm-3m). Experimentally, these polymorphs undergo sequential structural transitions from rutile-type → CaCl₂-type → α-PbO₂-type → fluorite-type with increasing pressure at 11.35, 14.69 and 58.22 GPa, respectively. We estimate the shear anisotropy (A₁ and A₃) on {1?0?0} and {0?0?1} crystallographic planes of the tetragonal phase and (A₁, A₂ and A₃) on {1?0?0}, {0?1?0} and {0?0?1} crystallographic planes of the orthorhombic phases. The rutile-type phase shows strongest shear anisotropy on the {0?0?1} planes (A₂ > 4.8), and the degree of anisotropy increases nonlinearly with pressure. In contrast, the anisotropy is almost absent on the {1?0?0} planes (ie A₁ ~ 1) irrespective of the pressure. The CaCl₂-type phase exhibits similar shear anisotropy behaviour preferentially on {0?0?1} (A₃ > 5), while A₁ and A₂ remain close to 1. The α-PbO₂-type phase shows strikingly different elastic anisotropy characterised by a reversal in anisotropy (A₃ > 1 to < 1) with increasing pressure at a threshold value of 38 GPa. We provide electronic density of states and atomic configuration to account for this pressure-dependent reversal in shear anisotropy. Our study also analyses the directional Young’s moduli for the tetragonal and orthorhombic phases as a function of pressure. Finally, we estimate the band gaps of these four SnO₂ phases as a function of pressure which are in agreement with the previous results.     

Incorporation of an allene unit into 1,4-dihydronaphthalene: generation of 1,2-benzo-1,4,5-cycloheptatriene and its dimerization

1-Bromo-1-fluoro-[1a,2,7,7a]-tetrahydro-1H-cyclopropa[b]naphthalene (19) has been prepared by the addition of bromofluorocarbene to 1,4-dihydronaphthalene (18). Treatment of a solution of 19 in dry ether with MeLi afforded the tricyclic hydrocarbon 17, resulting from the intramolecular C-H insertion of carbene 16, and two dimerization products, the head-to-head 20 and head-to-tail 21 allene dimers, confirming the formation of title cycloallene 15 as a reactive intermediate. B3LYP/6-31G(d) calculation predicts the activation barriers for insertion product 17 and allene product 15 as 3.70 and 9.52 kcal/mol, respectively. This prediction was in good agreement with our experimental results.     

M2B5 or M2B4? A Reinvestigation of the Mo/B and W/B System

The literature states different compositions (M/B = 1:2 vs. 2:5) and structures for diborides of molybdenum and tungsten. Using X‐ray and neutron powder diffraction as well as energy and wavelength dispersive electron microprobe analysis, the Mo/B and W/B systems were now reinvestigated. Molybdenum diboride crystallizes as a stoichiometric compound Mo₂B₄ (formerly described as Mo₂B₅) in space group (No. 166, a, b = 3.01375(2) Å, c = 20.9541(3) Å), and as a non‐stoichiometric compound MoB_2?x (formerly described as MoB₂) in P6/mmm (No. 191, a, b = 3.043(2) Å, c = 3.067(2) Å), whereas stoichiometric tungsten diboride W₂B₄ (formerly described as W₂B₅) is found to crystallize in space group P6₃/mmc (No. 194, a, b = 2.9864(4) Å, c = 13.896(2) Å). These results seem to be supported by DFT calculations which show the instability of a hypothetic W₂B₅.     

Structural, electronic, and optical properties of phosphole-containing pi-conjugated oligomers for light-emitting diodes

The purpose of this work is to provide an in-depth interpretation of the optical and electronic properties of a series of phosphole derivatives, including 2,5-diphenylthiooxophosphole (2a), 2-phenyl-5-biphenylthiooxophosphole (3a), 2-phenyl-5-stilbenylthiooxophosphole (4a), 2,5-dithienylthiooxophosphole (2b), 2-thienyl-5-biphenylthiooxophosphole (3b), 2-thienyl-5-stilbenylthiooxophosphole (4b), and dibenzophosphole 1. These thiooxophospholes show great potential for application in OLEDs as efficient red emitters due to the tuning of the optical and electronic properties by the use of various substituents at the 2,5-positions of the phosphole ring. The geometric and electronic structures of the oligomers in the ground state were investigated using density functional theory (DFT) and the ab initio HF, whereas the lowest singlet excited states were optimized with ab initio CIS. To assign the absorption and emission peaks observed in the experiment, we computed the energies of the lowest singlet excited states with time-dependent DFT (TD-DFT). All DFT calculations were performed using the B3LYP functional and the 6-31G (d) basis set. The results show that the HOMOs, LUMOs, energy gaps, ionization potentials, and electron affinities for the phosphole derivatives are significantly affected by varying the phosphole ring substituents at the 2,5-positions, which favor the hole and electron injection into OLEDs. The absorption and emission spectra exhibit red shifts to some extent [the absorption spectra: 339.63 (1)<358.65 (2a)<373.77 (3a)<443.89 nm (4a) and 403.03 (3b)<449.11 (2b)<460.19 nm (4b); the emission spectra: 418.42 (1)<513.62 (2a)<556.51 (3a)<642.59 nm (4a) and 568.31 (2b)<631.11 (3b)<647.35 nm (4b)] and the Stokes shifts are unexpectedly large ranging from 78 to 228 nm resulting from a more planar conformation of the excited state for the phosphole derivatives.     

DFT studies using supercells and projector-augmented waves for structure, energetics, and dynamics of glycine, alanine, and cysteine

A large variety of gas phase conformations of the amino acids glycine, alanine, and cysteine is studied by numerically efficient semi-local gradient-corrected density functional theory calculations using a projector-augmented wave scheme and periodic boundary conditions. Equilibrium geometries, conformational energies, dipole moments, vibrational modes, and IR optical spectra are calculated from first principles. A comparison of our results with values obtained from quantum-chemistry methods with localized basis sets and nonlocal exchange-correlation functionals as well as with experimental data is made. For conformations containing strong intramolecular hydrogen bonds deviations in their energetic ordering occur, which are traced back to different treatments of spatial nonlocality in the exchange-correlation functional. However, even for these structures, the comparison of calculated and measured vibrational frequencies shows satisfying agreement.     

Quick scheme for evaluation of atomic charges in arbitrary aluminophosphate sieves on the basis of electron densities calculated with DFT methods

It is demonstrated that unique and simple analytical functions are justified for the atomic charge dependences q of the T (T = Al, P) and O atoms of aluminophosphates (AlPOs) using DFT calculations with several basis sets, starting from STO-3G to 3-21G and 6-21G**. Three internal (bonds, angles, ...) coordinates for the charge dependences of the T atoms and four coordinates for the O are sufficient to reach a precision of 1.8% for the fitted q(Al), 1.0% for q(P), and 2.5% for q(O) relatively to the values calculated at any basis set level. The proposed strategy consists in an iterative scheme starting from charge dependences based on the neighbor's positions only. Electrostatic potential values are computed to illustrate the differences between the calculated and fitted charges in the considered AlPO models.     

Comparison of basis set effects and the performance of ab initio and DFT methods for probing equilibrium fluctuations

The electronic absorption and emission spectra of large molecules reflect the extent and timescale of electron-vibration coupling and therefore the extent and timescale of relaxation/reorganization in response to a perturbation. In this paper, we present a comparison of the calculated absorption and emission spectra of NADH in liver alcohol dehydrogenase (LADH), using quantum mechanical/molecular mechanical methods, in which we vary the QM component. Specifically, we have looked at the influence of basis set (STO-3G, 3-21G*, 6-31G*, CC-pVDZ, and 6-311G**), as well as the influence of applying the DFT TD-B3LYP and ab initio TD-HF and CIS methods to the calculation of absorption/emission spectra and the reorganization energy (Stokes shift). The ab initio TD-HF and CIS methods reproduce the experimentally determined Stokes shift and spectral profiles to a high level of agreement, while the TD-B3LYP method significantly underestimates the Stokes shift, by 45%. We comment on the origin of this problem and suggest that ab initio methods may be naturally more suited to predicting molecular behavior away from equilibrium geometries.     

Formation of 8-nitroguanine and 8-oxoguanine due to reactions of peroxynitrite with guanine

Reactions of peroxynitrite with guanine were investigated using density functional theory (B3LYP) employing 6-31G** and AUG-cc-pVDZ basis sets. Single point energy calculations were performed at the MP2/AUG-cc-pVDZ level. Genuineness of the calculated transition states (TS) was tested by visually examining the vibrational modes corresponding to the imaginary vibrational frequencies and applying the criterion that the TS properly connected the reactant and product complexes (PC). Genuineness of all the calculated TS was further ensured by intrinsic reaction coordinate (IRC) calculations. Effects of aqueous media were investigated by solvating all the species involved in the reactions using the polarizable continuum model (PCM). The calculations reveal that the most stable nitro-product complex involving the anion of 8-nitroguanine and a water molecule i.e. 8NO(2)G(-) + H(2)O can be formed according to one reaction mechanism while there are two possible reaction mechanisms for the formation of the oxo-product complex involving 8-oxoguanine and anion of the NO(2) group i.e. 8OG + NO(2)(-). The calculated relative stabilities of the PC, barrier energies of the reactions and the corresponding enthalpy changes suggest that formation of the complex 8OG + NO(2)(-) would be somewhat preferred over that of the complex 8NO(2)G(-) + H(2)O. The possible biological implications of this result are discussed.