Redox activity of nickel and vanadium porphyrins: a possible mechanism behind petroleum genesis and maturation?

The presence of metalloporphyrins in crude oil has been known for many years. In contrast, their role on the physical-chemical properties is only now beginning to be understood. In this study, we test using high-level ab initio calculations, the hypothesis of a possible redox catalytic activity of vanadium and nickel metalloporphyrins in crude oil, illustrated by the oxidation of methanol to formaldehyde and hydrogen dissociation, respectively. This process which may take place during petroleum genesis and maturation, explains some of its physical-chemical properties, such as polar chains, the absence of alcohols, the trapping of porphyrins within macromolecular aggregates.

Discerning Inter- and Intramolecular Vibrations of Sulfur Polyaromatic Compounds.

Thiophenes are an important class of molecules in fields as diverse as petrochemistry, molecular electronics, and optoelectronics. Thiophenic submolecular motifs are thought to play a role in molecular association and nanoaggregation phenomena in both pure materials and natural and synthetic mixtures. Vibrational (infrared and Raman) spectroscopy provides the means to characterize these species. In this work far-infrared photoacoustic and low-frequency Raman spectra of a series of polycyclic aromatic hydrocarbons containing sulfur have been measured and interpreted using DFT calculations based on a perturbational-variational method coupled with potential truncation. The approach and outcomes illustrate how inter- and intramolecular vibrations for thiophenic systems in single and multicomponent mixtures can be discriminated. This work offers the perspective to search the inter- and intramolecular signatures of the main submolecular motifs and heteroelements postulated as being present in the asphaltenes.

Periodic ab initio estimates of the dispersive interaction between molecular nitrogen and a monolayer of hexagonal BN.

The ab initio determination of the leading long-range term of pairwise additive dispersive interactions, based on the independent analysis of the response properties of the interacting objects, is here considered in the case where these are part of a periodic system. The interaction of a nitrogen molecule with a thin film of hexagonal BN has been chosen as a case study for identifying some of the problems involved, and for proposing techniques for their solution. In order to validate the results so obtained, the interaction energy between N(2) and a BN monolayer at different distances has been estimated following a totally different approach, namely by performing post-Hartree-Fock (MP2) supercell calculations using the Crystal+Cryscor suite of programs. The results obtained with the two approaches closely agree over a long range, while the limit of validity of the purely dispersive regime can be clearly assessed.

Calculation of IR frequencies and intensities in electrical and mechanical anharmonicity approximations: application to small water clusters.

We present a method for automatic computation of infrared (IR) intensities using parallel variational multiple window configuration interaction wave functions (P_VMWCI(2) algorithm). Inclusion of both mechanical and electrical anharmonic effects permits fundamental vibrational frequencies, including combinations and overtones, to be assigned. We use these developments to interpret the near-IR (NIR) and mid-IR (MIR) spectra of individual water clusters (H2O)(n) (n=1-4). Cyclic and linear systems are studied to provide equivalent reference theoretical data to investigate the structure of water as a function of density using NIR and MIR experimental spectra. Various density functional theory methods for generating the potential energy surface have been compared to reference results obtained at the CCSD(T) level [X. Huang et al., J. Chem. Phys. 128, 034312 (2008)]. For cyclic clusters, the IR intensities and frequencies obtained using B1LYP/cc-pVTZ are found to be in very good agreement with the available experimental values and of the same orders of magnitude as the reference theoretical values. These data are completed by the vibrational study of linear systems.

On the cluster composition of supercritical water combining molecular modeling and vibrational spectroscopic data.

The present study is aimed at a detailed analysis of supercritical water structure based on the combination of experimental vibrational spectra as well as molecular modeling calculations of isolated water clusters. We propose an equilibrium cluster composition model where supercritical water is considered as an ideal mixture of small water clusters (n=1-3) at the chemical equilibrium and the vibrational spectra are expected to result from the superposition of the spectra of the individual clusters, Thus, it was possible to extract from the decomposition of the midinfrared spectra the evolution of the partition of clusters in supercritical water as a function of density. The cluster composition predicted by this model was found to be quantitatively consistent with the near infrared and Raman spectra of supercritical water analyzed using the same procedure. We emphasize that such methodology could be applied to determine the portion of cluster in water in a wider thermodynamic range as well as in more complex aqueous supercritical solutions.

A new route for local probing of inner interactions within a layered double hydroxide/benzene derivative hybrid material.

This paper presents the preparation and characterization of hybrid hydrotalcite-type layered double hydroxides (Zn1-xAlx(OH)2HBSx.nH2O, with x=0.33) where HBS is the 4-phenol sulfonate, with a detailed analysis of the grafting process of this organic entity onto the host lattice. As a set of the usual techniques (XRD, TG-DT/MS, FTIR and 27Al MAS NMR) was used to characterize the hybrid materials, this work focuses on a joint study by X-ray photoelectron spectroscopy and some quantum-calculation modeling in order to highlight the nature of the interactions between the organic and the mineral sub-systems. For the as-prepared hybrid material, the main results lead to a quasi-vertical orientation of the organic molecules within the mineral sheets via H-bond stabilization. By heating the hybrid material up to 200 degrees C, the structure shrinks with the condensation of the organics; the different theoretical modeling done gives an energy-stable situation when a direct attachment of the HBS sulfonate group sets up with the mineral layers, in agreement with the recorded XPS experimental data.

Study of intercalated Ti atom in tetrahedral or octahedral sites of titanium disulfide (001) surfaces: theoretical scanning tunneling microscopy images.

We have performed ab initio linear combination of atomic orbitals-density functional theory calculations on biperiodic supercells to model the electronic and geometrical involvements of Ti intercalated atom in either octahedral or tetrahedral sites of the (001) TiS2 surfaces. For each type of defect, both the relaxed atomic structure and the electronic properties of the defect states were carefully analyzed. For the titanium atom in the van der Waals gap, the partial filling of the conduction band is in agreement with the metallic behavior reported by experimental studies and the last filled states in the bottom of the conduction band--mainly developed on titanium 3d orbitals--permit us to explain the dark defects observed on the scanning tunneling microscopy image of the (001) TiS2 surfaces. On the other hand, the intercalated titanium atom in the tetrahedral site which is just below the top sulfur atom plane governs the electronic density detected by the tip. It permits us to explain the triangular defect with a clear maximum of intensity in its center and dark sides.

Electronic and structural properties of Ti vacancies on the (001) surface of TiS2: theoretical scanning tunneling microscopy images.

Various defects--either bright or dark triangular defects--are observed on the (001) titanium disulfide surface by ultrahigh vacuum scanning tunneling microscopy. The experimental interpretations of the images available in the literature suggest that a fraction of Ti atoms could be displaced from the octahedral site they occupied to vacant sites of the crystal structure, leading to more or less correlated defects. In this paper, the authors have performed ab initio periodic linear combination of atomic orbitals-generalized gradient approximation (LCAO-GGA) calculations on (5x5) and (4x4) biperiodic supercells to model the electronic and geometrical involvements of Ti vacancy. The relaxed atomic structures of each system and the wave-function character of the defect states are carefully analyzed before the theoretical scanning tunneling microscopy images are generated within the Tersoff-Hamann approximation. The relaxed structure of the Ti vacancy shows an inward movement of the neighboring sulfur atoms at the surface. However, the occupied electronic states of the vacancy at the Fermi level are mainly developed on the atomic orbitals of the first sulfur neighbors at the surface, leading to bright triangular zones on the simulated image.