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At least 919 records · Page 51Linked to original sources
PubMed2005

Thermodynamic properties of molecular borane amines and the [BH4-][NH4+] salt for chemical hydrogen storage systems from ab initio electronic structure theory.

The heats of formation for the borane amines BH3NH3, BH2NH2, and HBNH, tetrahedral BH4-, and the BN molecule have been calculated by using ab initio molecular orbital theory. Coupled cluster calculations with single and double excitations and perturbative triples (CCSD(T)) were employed for the total valence electronic energies. Correlation consistent basis sets were used, up through the augmented quadruple-zeta, to extrapolate to the complete basis set limit. Core/valence, scalar relativistic, and spin-orbit corrections were included in an additive fashion to predict the atomization energies. Geometries were calculated at the CCSD(T) level up through at least aug-cc-pVTZ and frequencies were calculated at the CCSD(T)/aug-cc-pVDZ level. The heats of formation (in kcal/mol) at 0 K in the gas phase are Delta Hf(BH3NH3) = -9.1, Delta Hf(BH2NH2) = -15.9, Delta Hf(BHNH) = 13.6, Delta Hf(BN) = 146.4, and Delta Hf(BH4-) = -11.6. The reported experimental value for Delta Hf(BN) is clearly in error. The heat of formation of the salt [BH4-][NH4+](s) has been estimated by using an empirical expression for the lattice energy and the calculated heats of formation of the two component ions. The calculations show that both BH3NH3(g) and [BH4-][NH4+](s) can serve as good hydrogen storage systems which release H2 in a slightly exothermic process. The hydride affinity of BH3 is calculated to be 72.2 kcal/mol, in excellent agreement with the experimental value at 298 K of 74.2 +/- 2.8 kcal/mol.

Algorithms↗
PubMed2006

Near homogeneous variation of potentials in large systems and the electronic structure of molecular quantum dots.

It is shown from Kohn-Sham (KS) density-functional theory that in a large molecular system, the Coulomb potential, molecular electrostatic potential, and KS effective potential may exhibit an approximately homogeneous variation in space, in response to a small change of the electron number. The homogeneous variation of potentials underlies the constant interaction (CI) model of quantum dots (QDs) and is related to the delocalization and invariance of KS orbitals, the identical shift of KS levels, and a natural definition of the QD capacitance. Calculation results of a fullerene C60 and a single-walled carbon nanotube are presented. Although the homogeneity of the potential variation is not perfect, it seems to lead to fairly good approximation of the CI model to the addition energy spectra of these systems.

Journal Article↗
PubMed2001

Photo-CIDNP 13C magic angle spinning NMR on bacterial reaction centres: exploring the electronic structure of the special pair and its surroundings.

Photochemically induced dynamic nuclear polarisation (photo-CIDNP) in intact bacterial reaction centres has been observed by 13C-solid state NMR under continuous illumination with white light. Strong intensity enhancement of 13C NMR signals of the aromatic rings allows probing the electronic ground state of the two BChl cofactors of the special pair at the molecular scale with atomic selectivity. Differences between the two BChl cofactors are discussed. Several aliphatic 13C atoms of cofactors, as well as 13C atoms of the imidazole ring of histidine residue(s), show nuclear-spin polarisation to the same extent as the aromatic nuclei of the cofactors. Mechanisms and applications of polarisation transfer are discussed.

Carbon Isotopes↗
PubMed2005

Mechanism of cytotoxicity of catechols and a naphthalenediol in PC12-AC cells: the connection between extracellular autoxidation and molecular electronic structure.

ortho-Hydroxyphenols (catechols) form a common structural unit in naturally occurring antioxidants such as polyphenols. They also show pro-oxidant characteristics which depend on their particular structure. Here we examined the acetylated versions of three catechols and a naphthalenediol for cytotoxicity to adrenal PC12-AC cells. We found that the three catechols H1 (a p-methoxycatechol), H2 (a catechol analog of alpha-tocopherol), and H4 (a dioxymethylene-substituted catechol) strongly upregulate glutathione (GSH) in 24 h, whereas 1,4-dipropyl-2,3-naphthalenediol (DPND) does not. Upregulation of GSH is primarily caused by oxidative stress in the form of hydrogen peroxide generation, and both GSH upregulation and the rate of H(2)O(2) generation correlate well with the cytotoxicity. The major source of H(2)O(2) is autoxidation in the extracellular space, which results from transport of the (deacetylated) hydroquinone form outside the cell, rather than internal redox cycling. DPND is much less cytotoxic than any of the catechols. We show that this is because it cannot form a naphthoquinone due to the energy penalty associated with the loss of aromaticity in the benzene ring adjacent to the diol functional group. The relevance of these results to the design of antioxidants is discussed.

Animals↗
PubMed2003

Synthesis and characterization of new five-coordinate platinum nitrosyl derivatives: density functional theory study of their electronic structure.

The neutral, five-coordinate platinum nitrosyl compounds [Pt(C(6)F(5))(3)(L)(NO)] (2) [L=CNtBu (2 a), NC(5)H(4)Me-4 (2 b), PPhMe(2) (2 c), PPh(3) (2 d) and tht (2 e)] have been prepared by the reaction of [NBu(4)][Pt(C(6)F(5))(3)(L)] (1) with NOClO(4) in CH(2)Cl(2). The ionic compound [N(PPh(3))(2)][Pt(C(6)F(5))(4)(NO)] (4) has been prepared in a similar way starting from the homoleptic species [N(PPh(3))(2)](2)[Pt(C(6)F(5))(4)] (3). Compounds 2 and 4 are all diamagnetic with [PtNO](8) electronic configuration and show nu(NO) stretching frequencies at around 1800 cm(-1). The crystal and molecular structures of 2 c and 4 have been established by X-ray diffraction methods. The coordination environment for the Pt center in both compounds can be described as square pyramidal (SPY-5). Bent nitrosyl coordination is observed in both cases with Pt-N-O angles of 120.1(6) and 130.2(7) degrees for 2 c and 4, respectively. The bonding mechanism of the nitrosyl ligand coordinated to various model [Pt(II)R(4)](2-) (R=H, Me, Cl, CN, C(6)F(5) or C(6)Cl(5)) and [Pt(C(6)F(5))(3)(L)](-) (L=CNMe, PH(3)) systems has been studied by density functional calculations at the B3LYP level of theory, using the SDD basis set. The R(4)Pt-NO and (C(6)F(5))(3)(L)Pt-NO interactions generally involve two components: i) a direct Pt-NO bonding interaction and ii) multicenter-bonding interactions between the N atom of the NO ligand and the donor atoms of the R and L ligands. Moreover, with the more complex R groups, C(6)F(5) or C(6)Cl(5), a third component has been found to arise, which involves multicenter electrostatic interactions between the positively charged NO ligand and the negatively charged halo-substituents in the ortho-position of the C(6)X(5) groups (X=F, Cl). The contribution of each component to the Pt-NO bonding in R(4)Pt-NO and (C(6)F(5))(3)(L)Pt-NO compounds seems to be modulated by the electronic and steric effects of the R and L ligands.

Journal Article↗
PubMed2005

Electronic structure of U3+ in Cs3Lu2Cl9 and Cs3Y2I9 single crystals.

Low-temperature emission and polarized absorption spectra have been recorded for U(3+) ions diluted in Cs(3)Lu(2)Cl(9) and Cs(3)Y(2)I(9) host crystals. The experimental crystal-field levels were fitted to 13 parameters of a semiempirical Hamiltonian representing the combined atomic, one-electron crystal field (CF) as well as two-particle correlation crystal-field (CCF) operators. The red shift of the first f-d transitions from approximately 14,800 cm(-1) in the spectrum of U(3+):Cs(3)Lu(2)Cl(9) to as low as 11,790 cm(-1) in that of U(3+):Cs(3)Y(2)I(9) has been attributed to an increase in the covalence of the U(3+)-X(-) bonds. Comparison of the differences in the Coulomb repulsion strength between U(3+) and Er(3+) ions in Cs(3)Lu(2)Cl(9) and Cs(3)Y(2)I(9) crystals suggests that the 5f electrons of U(3+) ions are more 3d-like than 4f. The CF splitting of the (2)H(9/2) and (4)F(5/2) multiplets is unexpectedly larger for U(3+):Cs(3)Y(2)I(9) than for U(3+):Cs(3)Lu(2)Cl(9), which may be viewed as a result of the proximity of f-d states. For a correct description of the energy level structure of the (2)H(9/)(2) and (4)F(5/2) multiplets, the inclusion of CCF terms in the parametric Hamiltonian has proved to be essential. The larger f-f transition intensities for U(3+):Cs(3)Y(2)I(9) were also considered to be a consequence of the red shift of the first f-d states. The inadequacy in determination of the minor atomic parameters (other than parameters for Coulomb and spin-orbit interactions) and the insufficient inclusion of the influence of excited configuration in the applied CF Hamiltonian are assumed to be the main deficiencies preventing a better agreement between the experimental and calculated energies of CF levels.

Journal Article↗
PubMed2005

Disproving a silicon analog of an alkyne with the aid of topological analyses of the electronic structure and ab initio molecular dynamics calculations.

A silicon compound has recently been synthesized that was claimed to exhibit the first realization of a silicon-silicon triple bond. We debate this classification on the basis of a thorough investigation of the nature of the chemical bond, using the rigorous topological analysis of the electron density as developed in Bader's atoms-in-molecules theory, that of the electron localization function and the related orbital-independent definitions of the bond order. Our results refer both to the ground-state geometry and to nonequilibrium configurations, which are accessed by the system in a room-temperature ab initio molecular dynamics simulation. We also use the reciprocal compliance force constant as an independent chemical descriptor. All the above procedures are in agreement and do not support the classification of the silicon-silicon central bond as triple. The characterization which consistently emerges from the present study is one in which two electron pairs participate in the bonding and the other pair belongs mainly to nonbonding regions.

Alkynes↗
PubMed2006

Modeling carbon nanostructures with the self-consistent charge density-functional tight-binding method: vibrational spectra and electronic structure of C(28), C(60), and C(70).

The self-consistent charge density-functional tight-binding (SCC-DFTB) method is employed for studying various molecular properties of small fullerenes: C(28), C(60), and C(70). The computed bond distances, vibrational infrared and Raman spectra, vibrational densities of states, and electronic densities of states are compared with experiment (where available) and density-functional theory (DFT) calculations using various basis sets. The presented DFT benchmark calculations using the correlation-consistent polarized valence triple zeta basis set are at present the most extensive calculations on harmonic frequencies of these species. Possible limitations of the SCC-DFTB method for the prediction of molecular vibrational and optical properties are discussed. The presented results suggest that SCC-DFTB is a computationally feasible and reliable method for predicting vibrational and electronic properties of such carbon nanostructures comparable in accuracy with small to medium size basis set DFT calculations at the computational cost of standard semiempirical methods.

Journal Article↗