The role of the peripheral anionic site and cation-pi interactions in the ligand penetration of the human AChE gorge

We study the ligand (tetramethylammonium) recognition by the peripheral anionic site and its penetration of the human AChE gorge by using atomistic molecular dynamics simulations and our recently developed metadynamics method. The role of both the peripheral anionic site and the formation of cation-pi interactions in the ligand entrance are clearly shown. In particular, a simulation with the W286A mutant shows the fundamental role of this residue in anchoring the ligand at the peripheral anionic site of the enzyme and in positioning it prior to the gorge entrance. Once the ligand is properly oriented, the formation of specific and synchronized cation-pi interactions with W86, F295, and Y341 enables the gorge penetration. Eventually, the ligand is stabilized in a free energy basin by means of cation-pi interactions with W86.     

Transition energies and oscillator strengths for electronic spectra of non planar conjugated molecules. I. Polyphenyls

Ultraviolet spectra of terphenyls and quaterphenyls are theoretically investigated by Molecules in Molecules (MIM) method and compared with experiment. Oscillator strengths are evaluated using the gradient operator and the mixed dipole-gradient operator. The results are compared with those obtained by the dipole-length operator. The calculation of oscillator strengths via the gradient operator is shown to be in general the most successful. All the components of the primitive integral, necessary for non planar -electron systems, are reported.

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Zusammenfassung Die Ultraviolettspektren von Terphenylen und Quaterphenylen wurden mit Hilfe der Molekül im Molekül (MIM) Methode theoretisch untersucht und mit den experimentellen Resultaten verglichen. Mit einem Gradient-Operator und einem gemischten Dipol-Gradient-Operator wurden die Oszillatorenstärken berechnet und mit Rechnungen mit Dipollängen-Operatoren verglichen. Es wird gezeigt, daß die Berechnung von Oszillatorenstärken mit dem Gradient-Operator im allgemeinen am erfolgreichsten ist. Es werden alle Komponenten des primitiven Integrals, die für nicht planare -Elektronensysteme nötig, angegeben.

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Résumé Les spectres dans l'ultraviolet des triphényles et des quadriphényles sont étudiés théoriquement par la méthode «Molécules dans les molécules» (MIM) et comparés à l'expérience. Les forces oscillatrices sont évaluées en utilisant l'opérateur gradient et l'opérateur mixte gradient dipolaire. Les résultats sont comparés avec ceux obtenus avec l'opérateur longueur dipolaire. Le calculades, forces oscillatrices à l'aide de l'opérateur gradient s'avère plus convenable. On reproduit toutes les composantes de «l'intégrale primitive», nécessaires pour les systemes d'électrons non plans.

     

Geometry of acetylene chemisorption on Ni(100) investigated by leed intensity analysis: The c(2 × 2) structure

Results from LEED dynamical calculations performed on the Ni(100) c(2 × 2)C₂H₂ structure, produced by adsorption of C₂H₂ at about 273 K and 1.5 L exposure, are reported. Among the several model geometries tried, the most favoured one appears to be a distorted acetylene molecule with the midpoint of the CC bond (1.20 Å long) placed above the fourfold hollow site at a vertical distance 2.02 Å from the topmost Ni layer and with the CC axis itself tilted by 50° with respect to the surface normal in the [011] direction. In this geometry the NiC distance is 2.2 Å.     

An ab initio study of the reaction of ammonium ion with hydride ion and lithium hydride

Both the abstraction and substitution mechanisms for the reaction of NH⁺₄ with H^? and the abstraction mechanisms for the reaction with LiH in the gas phase have been investigated by theoretical methods. LiH results to be a better reagent and reactions with and without scrambling are competitive in accordance with experimental findings.