Using self-similar properties of turbulent premixed flames to downsize chemical tables in high-performance numerical simulations

Detailed chemical mechanisms have to be incorporated in turbulent combustion modelling to predict flame propagation, ignition, extinction or pollutant formation. Unfortunately, hundreds of species and thousands of elementary reactions are involved in hydrocarbon chemical schemes and cannot be handled in practical simulations, because of the related computational costs and the need to model the complexity of their interaction with turbulent motions. Detailed chemistry may be handled using look-up tables, where chemical parameters such as reaction rates and/or species mass fractions are determined from a reduced set of coordinates, progress variables or mixture fractions, as proposed in ILDM, FPI or FGM methods. Nevertheless, these tables may require large computer memory spaces and non-negligible access times. This issue becomes of crucial importance when running on massively parallel computers: to implement these databases in shared memories would induce a large number of data exchanges, reducing the overall code performance; on the other hand duplicating databases in every local processor memory may become impossible either for large databases or small local memories. This work proposes to take advantage of the self-similar behaviour of turbulent premixed flames to reduce the size of these chemical databases, specifically when running on massively parallel machines, under the FPI (Flame Prolongation of ILDM) framework. Several approaches to reduce the database are investigated and discussed both in terms of memory requirements and access times. A very good compromise is obtained for methane–air turbulent premixed flames, where the size of the database is decreased by a factor of 1000, while the access time is reduced by about 60%.     

On Transition Structures for Hydride Transfer Step in Enzyme Catalysis. A Comparative Study on Models of Glutathione Reductase Derived from Semiempirical, HF, and DFT Methods

As a model of the chemical reactions that take place in the active site of gluthatione reductase, the nature of the molecular mechanism for the hydride transfer step has been characterized by means of accurate quantum chemical characterizations of transition structures. The calculations have been carried out with analytical gradients at AM1 and PM3 semiempirical procedures, ab initio at HF level with 3-21G, 4-31G, 6-31G, and 6-31G basis sets and BP86 and BLYP as density functional methods. The results of this study suggest that the endo relative orientation on the substrate imposed by the active site is optimal in polarizing the C4-Ht bond and situating the system in the neighborhood of the quadratic region of the transition structure associated to the hydride transfer step on potential energy surface. The endo arrangement of the transition structure results in optimal frontier HOMO orbital interaction between NADH and FAD partners. The geometries of the transition structures and the corresponding transition vectors, that contain the fundamental information relating reactive fluctuation patterns, are model independent and weakly dependent on the level of theory used to determine them. A comparison between simple and complex molecular models shows that there is a minimal set of coordinates describing the essentials of hydride transfer step. The analysis of transition vector components suggests that the primary and secondary kinetic isotope effects can be strongly coupled, and this prompted the calculation of deuterium and tritium primary, secondary, and primary and secondary kinetic isotope effects. The results obtained agree well with experimental data and demonstrate this coupling.     

Acetoxyphenylketene. Reaction with biacetyl

The generation of acetoxyphenylketene (4) in the cold in the presence of biacetyl yields the single β-lactone $\text{12B}$, which undergoes a novel rearrangement to the tricyclic orthoester lactone $\text{11}$ above 130°.     

Density functional theory study of the mechanism of the proline-catalyzed intermolecular aldol reaction

Transition structures associated with the C-C bond-formation step of the proline-catalyzed intermolecular aldol reaction between acetone and isobutyraldehyde have been studies using density functional theory methods at the B3LYP/6-31G** computational level. A continuum model has been selected to represent solvent effects. For this step, which is the stereocontrolling and rate-determining step, four reactive channels corresponding to the syn and anti arrangement of the active methylene of the enamine relative to the carboxylic acid group of l-proline and the re and si attack modes to both faces of the aldehyde carbonyl group have been analyzed. The B3LYP/6-31G** energies are in good agreement with experiment, allowing us to explain the origin of the catalysis and stereoselectivity for these proline-catalyzed aldol reactions. Received: 2 April 2002 / Accepted: 18 July 2002 / Published online: 11 October 2002 Acknowledgements. This work was supported by research funds provided by the Ministerio de Educación y Cultura of the Spanish Government by DGICYT (project PB98–1429). All the calculations were performed on a Cray–Silicon Graphics Origin 2000 of the Servicio de Informática de la Universidad de Valencia. We are most indebted to this center for providing us with computer capabilities. Correspondence to: L. R. Domingo e-mail: domingo@utopia.uv.es     

Practical C-H functionalization of quinones with boronic acids

A direct functionalization of a variety of quinones with several boronic acids has been developed. This scalable reaction proceeds readily at room temperature in an open flask using inexpensive reagents: catalytic silver(I) nitrate in the presence of a persulfate co-oxidant. The scope with respect to quinones is broad, with a variety of alkyl- and arylboronic acids undergoing efficient cross-coupling. The mechanism is presumed to proceed through a nucleophilic radical addition to the quinone with in situ reoxidation of the resulting dihydroquinone. This method has been applied to complex substrates, including a steroid derivative and a farnesyl natural product.     

Synthesis and Characterization of Canola-Based Cholesteryl Ester and Nematic E7 Mixture

Abstract

The fatty acid of Canola Oil, 61% of which is Oleic acid, was extracted. Fourier Transform Infrared Spectrophotometry (FTIR) confirmed the fatty acid extraction. Canola-based Cholesteryl Ester (CANCE) was obtained through esterification. FTIR scans of the CANCE and the fatty acid were compared to verify the complete esterification. The resulting crude product is a yellow wax with some crystals embedded on it. Thin layer chromatography was then performed to determine the appropriate solvent for the column chromatography to purify the crude sample. The purified product was characterized using Optical Polarizing Microscopy and Differential Scanning Calorimetry. Mixtures of the Nematic E7 and CANCE in different ratios were prepared. Transition temperatures of each mixture were determined using differential scanning calorimetry and verified using optical polarizing microscopy.     

Controlled Positioning of Nanoparticles on Graphene by Noninvasive AFM Lithography

Atomic force microscopy is shown to be an excellent lithographic technique to directly deposit nanoparticles on graphene by capillary transport without any previous functionalization of neither the nanoparticles nor the graphene surface while preserving its integrity and conductivity properties. Moreover this technique allows for (sub)micrometric control on the positioning thanks to a new three-step protocol that has been designed with this aim. With this methodology the exact target coordinates are registered by scanning the tip over the predetermined area previous to its coating with the ink and deposition. As a proof-of-concept, this strategy has successfully allowed the controlled deposition of few nanoparticles on 1 μm(2) preselected sites of a graphene surface with high accuracy.     

An understanding of the electrophilic/nucleophilic behavior of electro-deficient 2,3-disubstituted 1,3-butadienes in polar diels-alder reactions. A density functional theory study

The electrophilic/nucleophilic behavior of dimethyl 2,3-dimethylenesuccinate 1, an electron-deficient 2,3-disubstituted 1,3-butadiene, in polar Diels-Alder reactions has been studied using DFT methods at the B3LYP/6-31G(d) level of theory. The electronic nature of bonding of the transition structures involved in the cycloaddition reactions of the diene 1 toward the nucleophilically activated dienophile 6 and the strong electrophilically activated dienophile 7 has been carefully examined within the natural bond orbital (NBO) and the topological analysis of the electron localization function (ELF) frameworks. Additionally, a study of the global electrophilicity pattern of the reagents at the ground state was performed. This evidence allows us to rationalize the participation of electron-deficient 2-susbtituted and 2,3-disubstituted 1,3-butadienes as nucleophiles in polar Diels-Alder reactions.     

Solution SERS of an insoluble synthetic organic pigment-quinacridone quinone-employing calixarenes as dispersive cavitands

A possibility of getting SERS spectra of insoluble aromatic compounds in colloidal silver solutions is described. The method tested for the organic pigment quinacridone quinone consists of dispersing it in calix[n]arenes. The potentials of such cavitands, both as dispersing and as silver functionalization agents, is reported as a function of the substitution in their lower rim and their cavity size.