Theoretical insight into the rearrangement of sulfur atoms on the Ni- and Cu-doped MoS2 S-edge induced by hydrogen adsorption under HDS reaction conditions.

Density functional theory (DFT) calculations and an atomistic thermodynamic approach were used to study the geometric rearrangement of sulfur atoms on the Ni- and Cu-doped MoS2 S-edge upon hydrogen adsorption. Under HDS conditions, thermodynamically stable hydrogenated structures were identified as SH groups on the undoped S-edge with 100% sulfur coverage, on the Ni-doped S-edge with 50% sulfur coverage and on the Cu-doped S-edge with 25% sulfur coverage. It was found that the rearrangement of the S atoms is essential to reach the most stable state at the edge for the undoped and Ni-doped S-edge. Hydrogen adsorption on the Ni-doped S-edge leads to the greatest amount of S rearrangement (ΔERearrang = 0.93 eV/H2). Our results suggest that under the reaction conditions, the H2 dissociative adsorption process is strongly coupled to the rearrangement of the sulfur atoms. By examining the differential hydrogen adsorption energy on the most stable edge structures, we found a plausible explanation for the trend in the hydrogenation activity of the doped edges. Our results suggest that Ni enhances the hydrogenation activity of the S-edge by decreasing the S-H bond strength, while Cu poisons it by increasing the S-H bond strength.

Performance of density functional methods. Some difficult cases for small systems containing Cu, Ag, or Au.

Twenty-six density functional theory (DFT) methods were tested in conjunction with three different effective core potentials (ECPs) and their corresponding valence basis sets, for studying the behavior of DFT methods in small systems containing Cu, Ag, or Au where it is well-known that some functionals fail. The DFT results were compared with those obtained with post Hartree-Fock methods: second-order many-body perturbation theory (MP2), coupled cluster singles-doubles (CCSD), and coupled cluster singles-doubles with perturbative triples, CCSD(T). Calculations were carried for M3 (M = Cu, Ag, Au); M4(-), (M = Cu, Ag) and [H2O-Cu](+2). The comparison of the DFT calculated values with the Post Hartree-Fock values showed that, in general, all generalized gradient approximation (GGA) type functionals fail to describe these systems. The hybrid GGA functionals (H-GGA) showed a better behavior; however, when the Lee-Yang-Parr (LYP) exchange-correlation functional was used, wrong results were obtained. The results with the hybrid meta (HM-GGA) functionals, as in the case of H-GGAs, showed that, to obtain similar results to MP2 or CCSD(T), it is necessary to have a high Hartree-Fock exchange percentage. Spurious results obtained with the H-GGA or HM-GGA methods can be eliminated increasing the Hartree-Fock exchange percentage in the H-GGA or HM-GGA type functionals. Among the different functionals tested, the BB1K and MPWB1K functionals showed the best agreement with the MP2 and CCSD(T) results.

Synthesis, characterization and biological activity of trans-platinum(II) complexes with chloroquine.

Three platinum-chloroquine complexes, trans-Pt(CQDP)(2)(I)(2) [1], trans-Pt(CQDP)(2)(Cl)(2) [2] and trans-Pt(CQ)(2)(Cl)(2) [3], were prepared and their most probable structure was established through a combination of spectroscopic analysis and density functional theory (DFT) calculations. Their interaction with DNA was studied and their activity against 6 tumor cell lines was evaluated. Compounds 1 and 2 interact with DNA primarily through electrostatic contacts and hydrogen bonding, with a minor contribution of a covalent interaction, while compound 3 binds to DNA predominantly in a covalent fashion, with weaker secondary electrostatic interactions and possibly hydrogen bonding, this complex also exerted greater cytotoxic activity against the tumor cell lines.

Interaction of CO molecule with Au/MOR catalyst: ONIOM-PM6 study, active sites, thermodynamic and vibrational frequencies.

ONIOM calculations have been carried out to determine geometries, adsorption energies, and vibrational frequencies of CO on a model for Au-exchanged mordenite catalysts, Au/MOR. The CO-calculated vibrational frequencies (upsilon(CO)) are in good agreement with the reported experimental values. We proposed to interpret the frequency results. CH(3)COCH(3) and CH(3)SH adsorption enthalpy calculations on Au/MOR model show that the Au/MOR catalyst behaves like a soft acid according to Pearson's rule. A higher structural deformation degree of the mordenite was found in the calculations with PM6 than with universal force field approach approach. A new pseudopotential (ACEP-121) was developed to improve the Au-Au distance, and Au ionization potential.

Synthesis and characterization of [Au(dppz)2]Cl3. DNA interaction studies and biological activity against Leishmania (L) mexicana.

[Au(dppz)(2)]Cl(3) was synthesized by the reaction of HAuCl(4) in excess of the dypirido[3,2-a: 2,3-c]phenazine (dppz) ligand. This complex was characterized by elemental analysis, fast atom bombardment (FAB) mass, NMR, UV-visible and IR spectroscopies. DNA-gold complex interactions were studied by spectroscopic titrations, viscosity measurements and electrophoretical assays. These studies showed that the gold complex interacts with DNA by intercalation mode. These observations, led us to carry out biological tests on cultures of promastigotes of Leishmania (L) mexicana. [Au(dppz)(2)]Cl(3) induced a dose dependent antiproliferative activity with minimal inhibitory concentration (MIC) of 3.4nM and lethal doses LD(26) of 17nM for 48h. These findings suggest that a very potent leishmanicidal activity could be associated to the cellular processes involving parasite DNA, constituting a new promising chemotherapeutic alternative in the search for definitive leishmaniasis cure.

Theoretical study on silver- and gold-loaded zeolite catalysts: thermodynamics and IR spectroscopy.

Density functional calculations have been carried out to determine geometries, adsorption energies and vibrational frequencies of NO, N(2)O, CO, O(2), and H(2)O, on a model for Ag(I) and Au(I) ion-exchanged ZSM-5 catalysts. Using statistical mechanics, the DeltaH and DeltaG values were calculated in order to evaluate the stability of the adsorbates on Ag(I) and Au(I) sites. The calculated vibrational frequencies are in reasonable agreement with the reported experimental values. The analysis of the results shows that at 475 degrees C the adsorption of two NO molecules and the direct N(2)O decomposition on AgZSM-5 are thermodynamically unfavorable. The adsorption of one NO molecule presents a small positive DeltaG value. On the contrary, in the case of AuZSM-5, the adsorption of one NO molecule and the direct N(2)O decomposition to produce N(2) are thermodynamically favorable. For both models, the N(2)O decomposition by AgO and AuO species is thermodynamically very favorable. The analysis of the interaction with H(2)O shows that water displaces the adsorbed NO on AgZSM-5 but not on AuZSM-5 which indicates that the AuZSM-5 catalyst is less sensitive to deactivation by H(2)O than the AgZSM-5 catalyst.

Robust hydrogen-bonded self-assemblies from biimidazole complexes. Synthesis and structural characterization of [M(biimidazole)2(OH2)2]2+ (M = Co2+, Ni2+) complexes and carboxylate modules.

A robust heteromeric hydrogen-bonded synthon [R2(2) (9)-Id] is exploited to drive the modular self-assembly of four coordination complexes [M(H2biim)2(OH2)2]2+ (M = Co2+, Ni2+) and carboxylate counterions. This strategy allowed us to build molecular architectures of 0-, 1-, and 2-dimensions. A hydrogen-bonded 2D-network with cavities has been designed, which maintains its striking integrity after reversible water desorption-resorption processes.