Different approaches to conformational analysis: A comparison of completeness,efficiency, and reliability based on the study of a nine-membered lactam

Different methods such as molecular dynamics, systematic, or stochastic search and a special “generic shape” algorithm have been employed in the conformational analysis of a nine-membered lactam. Furthermore, crystal data were used to generate conformations of the compound under consideration. The various methods are compared in terms of their efficiency and completeness in the search for conformations with an energy content of up to 60 kJ/mol above the global minimum. Additionally, the generated conformations have been optimized by different techniques, molecular mechanics and quantum chemical calculations, to compare the number of existing local minima and their relative energies and geometries.     

Wrap-around partitioning for block bidiagonal linear systems

A stable vector algorithm for the solution of block diagonallinear systems is obtained by a permutation of the unknownscalled wrap-around partitioning combined with standard QR factorization.Wrap-around partitioning uses blocking and selects the unknownsin the blocks in turns. After a suitable orthogonal eliminationstep one ends up with a reduced system which is again blockbidiagonal and so wrap-around partitioning can be applied again.Using a simple model for vectorization overhead it is shownthat small block sizes give best performance. The minimal blocksize 2, which corresponds to cyclic reduction, is suboptimaldue to memory bank conflicts.     

Gel growth of α and γ glycine and their characterization

The microbial free single crystals of α and γ glycine were grown from gel at room temperature in a new chemical route. These crystals showed a superior quality than the solution grown crystals. The metastable α-form and the stable γ-form of glycine were crystallized in silica gel by solubility reduction method. The form of crystallization is confirmed by single crystal and powder X-ray diffraction analyses. The crystals of α and γ glycine were found to crystallize in monoclinic and hexagonal crystal systems, respectively. For analyzing the functional group and thermal stability of α and γ glycine crystals, spectroscopic and thermal analyses have been carried out. The dielectric studies were performed to find the dielectric constant of the grown crystals and the results are discussed. Second harmonic generation efficiency of the crystal was measured by Kurtz’s powder method using Nd:YAG laser and it was found to be 2.68 times that of potassium dihydrogen phosphate crystals.     

Polymeric porphyrin and metalloporphyrin assemblies in bulk solution

Some water-soluble porphyrins aggregate in aqueous media to form fibrous assemblies. When polynucleotides are used as matrices, porphyrin monomers are aligned at the periphery or intercalated. Porphyrin-porphyrin interactions hardly occur. Metal-metal or metal-ligand-metal interactions have been observed in oxo-oligomers, pyrazine-bridged dimers and radical dimers. β-Substituted metallo-porphyrins, however, form no polymers. The only linear polymerization, which has so far been observed in molecular asemblies, occurs with amphiphilic porphyrin amides, amines and carboxylates and their metal complexes in water and of bacteriochlorophyll in DMF/water. These compounds form long-lived high molecular weight micellar, inverse micellar and vesicular fibers spontaneously in aqueous media. The porphyrin fibers in water are about 4-6 nm thick and up to several of μm long.