Neste trabalho realizou-se um estudo espectroscópico vibracional do dissulfeto de carbono, CS2, puro e em misturas binárias com diferentes solventes moleculares, a fim de investigar as interações soluto/soluto e soluto/solvente. Os solventes utilizados para esse estudo foram diclorometano (CH2Cl2), clorofórmio (CHCl3), clorofórmio deuterado (CDCl3), benzeno (C6H6) e tetracloreto de carbono (CCl4); e as técnicas utilizadas foram as espectroscopias Raman e infravermelho (IV). A análise das bandas Raman do CS2 que formam o dubleto de Fermi (v1-2v2) permite determinar uma série de valores empíricos, chamados de parâmetros de ressonância de Fermi, dentre os quais, o coeficiente de acoplamento de Fermi (W) foi o mais utilizado neste trabalho. Os diferentes valores de W nos diferentes meios são consequência das forças das interações intermoleculares existentes entre CS2/CS2 e CS2/solvente. Os experimentos demonstraram que os valores de W em todas as misturas binárias investigadas aumentam à medida que a fração molar de CS2 diminui. Isto sugere que quando o CS2 é solvatado por diferentes moléculas, há um aumento da anarmonicidade, dependendo do tipo de interação. A análise da banda atribuída ao modo de deformação angular do CS2, v2, realizada a partir dos espectros no infravermelho sugere que em misturas binárias existem dois regimes de solvatação na solução, uma referente às interações CS2/ CS2, onde as moléculas de CS2 estão preferencialmente solvatadas por moléculas de CS2 e outro regime de solvatação referente às interações CS2/solvente, onde CS2 está solvatado por moléculas do solvente em questão. / In this work has performed a vibrational spectroscopic investigation of carbon disulphide, CS2, neat and in binary mixtures with different molecular solvents, aiming at understanding the solute/solute and solute/solvent interactions. The solvents considered for this study were dichloromethane (CH2Cl2), chloroform (CHCl3), deuterated chloroform (CDCl3), benzene (C6H6) and carbon tetrachloride (CCl4); and the techniques used were Raman and infrared (IR) spectroscopies. The analysis of the Raman bands that compose the Fermi doublet (v1-2v2) allows the determination of a series of empirical values, including the coefficient of Fermi coupling (W), used along this work. The different values of W within the different solvents are consequence of the intermolecular forces between CS2/CS2 and CS2/solvent. The experimental data showed that the W values in all investigated binary mixtures increase as the CS2 molar fraction decreases. It suggests that when CS2 is solvated by different molecules, there is an increase of the anarmonicity, depending on the type of the interaction. The analysis of the band assigned to the CS2 bending mode, v2, performed from infrared spectra, suggests that in the binary mixtures there are two solvation regimes in solution, one related to the CS2/CS2 interactions, where the CS2 molecule is preferentially solvated by CS2 molecules, and one where the CS2 is solvated by the respective solvent molecules.

No presente trabalho utilizamos as espectroscopias eletrônica e vibracional, com o apoio de simulação computacional de líquidos para estudar o comportamento solvatocrômico e ionocrômico de diaminoantraquinonas. Adicionalmente estudamos a potencialidade da 1,2-diaminoantraquinona (1,2-DAAQ) no reconhecimento de ânions em superfícies de prata. Utilizando espectroscopia de absorção obtivemos espectros da 1,2-DAAQ e alguns isômeros em diversos solventes. Estes resultados foram analisados por métodos empíricos de solvatocromismo, principalmente, pela escala solvatocrômica de Kamlet-Taft. Esta análise nos propiciou um conhecimento preciso sobre o comportamento da 1,2-DAAQ em meio solvente e serviu de suporte para o estudo do ionocromismo, e da interação com as superfícies. Através da simulação computacional geramos estruturas de soluções da 1,2-DAAQ em três solventes e analisamos a estrutura destas soluções via análise das Funções de Distribuição Radial de pares, o que nos possibilitou uma visão no nível microscópico do efeito das interações com o solvente. As estruturas geradas serviram de base para o cálculo do espectro de absorção para comparação com os valores experimentais. Baseado nesta comparação foi possível especular que a estrutura da 1,2-DAAQ é afetada pelo solvente no estado excitado. Utilizando espectroscopia no infravermelho e eletrônica foi possível caracterizar o tipo de interação entre a 1,2-DAAQ e o ânion fluoreto, como sendo por ligação de hidrogênio de força moderada. A atribuição vibracional da 1,2-DAAQ foi realizada com base nos espectros Raman, auxiliada por cálculos de freqüência. A atribuição foi utilizada para a determinação da orientação da 1,2-DAAQ nas superfícies de prata e principalmente para estudar a natureza desta interação. A análise destes resultados nos permitiu traçar um panorama bastante claro sobre esta interação além de auxiliar no entendimento do uso da 1,2-DAAQ como sonda aniônica de superfícies. Finalmente, através da espectroscopia Raman ressonante foi possível confirmar e detalhar a atribuição da transição eletrônica observada na região do visível, característica das diaminoantraquinonas. / In the present work, the ionochromic and solvatochromic behavior of several diaminoantraquinones were investigated by means of optical and vibrational spectroscopies, alongside computational simulation. The UV-Vis spectra of 1,2- diaminoantraquinone (1,2-DAAQ) were analyzed using empirical solvatochromic scales, like the Kamlet-Taft. Such analysis enabled an accurate description of its solvatochromic behavior that was instrumental to understand its interaction with anions and metallic surfaces. Computational simulation provided the structures of 1,2-DAAQ solutions in three different solvents, and the analyses of the radial distribution functions revealed a microscopic view of its interactions with the solvents. The obtained structures were the departing points for the calculation of the electronic spectrum, then compared with the experimental one. The results suggest that the structure of 1,2-DAAQ is substantially affected by the solvent in the excited state. Infrared spectroscopy clearly indicates that the interaction of the 1,2-DAAQ and fluoride involves a hydrogen bonding of moderate strength. Raman spectroscopy and quantum chemical calculations provided the means for the vibrational assignment that was instrumental to understand the orientation of the molecule in its interaction with silver surface.

Neste trabalho realizou-se um estudo espectroscópico vibracional do dissulfeto de carbono, CS2, puro e em misturas binárias com diferentes solventes moleculares, a fim de investigar as interações soluto/soluto e soluto/solvente. Os solventes utilizados para esse estudo foram diclorometano (CH2Cl2), clorofórmio (CHCl3), clorofórmio deuterado (CDCl3), benzeno (C6H6) e tetracloreto de carbono (CCl4); e as técnicas utilizadas foram as espectroscopias Raman e infravermelho (IV). A análise das bandas Raman do CS2 que formam o dubleto de Fermi (v1-2v2) permite determinar uma série de valores empíricos, chamados de parâmetros de ressonância de Fermi, dentre os quais, o coeficiente de acoplamento de Fermi (W) foi o mais utilizado neste trabalho. Os diferentes valores de W nos diferentes meios são consequência das forças das interações intermoleculares existentes entre CS2/CS2 e CS2/solvente. Os experimentos demonstraram que os valores de W em todas as misturas binárias investigadas aumentam à medida que a fração molar de CS2 diminui. Isto sugere que quando o CS2 é solvatado por diferentes moléculas, há um aumento da anarmonicidade, dependendo do tipo de interação. A análise da banda atribuída ao modo de deformação angular do CS2, v2, realizada a partir dos espectros no infravermelho sugere que em misturas binárias existem dois regimes de solvatação na solução, uma referente às interações CS2/ CS2, onde as moléculas de CS2 estão preferencialmente solvatadas por moléculas de CS2 e outro regime de solvatação referente às interações CS2/solvente, onde CS2 está solvatado por moléculas do solvente em questão. / In this work has performed a vibrational spectroscopic investigation of carbon disulphide, CS2, neat and in binary mixtures with different molecular solvents, aiming at understanding the solute/solute and solute/solvent interactions. The solvents considered for this study were dichloromethane (CH2Cl2), chloroform (CHCl3), deuterated chloroform (CDCl3), benzene (C6H6) and carbon tetrachloride (CCl4); and the techniques used were Raman and infrared (IR) spectroscopies. The analysis of the Raman bands that compose the Fermi doublet (v1-2v2) allows the determination of a series of empirical values, including the coefficient of Fermi coupling (W), used along this work. The different values of W within the different solvents are consequence of the intermolecular forces between CS2/CS2 and CS2/solvent. The experimental data showed that the W values in all investigated binary mixtures increase as the CS2 molar fraction decreases. It suggests that when CS2 is solvated by different molecules, there is an increase of the anarmonicity, depending on the type of the interaction. The analysis of the band assigned to the CS2 bending mode, v2, performed from infrared spectra, suggests that in the binary mixtures there are two solvation regimes in solution, one related to the CS2/CS2 interactions, where the CS2 molecule is preferentially solvated by CS2 molecules, and one where the CS2 is solvated by the respective solvent molecules.

Design and synthesis of novel supramolecular architectures is an interesting area of research in the last two decades. Intermolecular interactions assisted self-assembly of molecular and macromolecular building blocks play an important role in obtaining the desired shape and function of the supramolecular architectures. A combination of the classical covalent synthesis with the self-assembly assisted formation of well-defined architectures (noncovalent synthesis) allows us to develop novel multifunctional materials. Our approach in this area is focused on the design of novel molecular and biomolecular building blocks and the optimization of structure-property relationship of the materials using self-assembly approach. This presentation will focus on our recent efforts on the design and synthesis of polymers and oligopeptides for investigation of the self-assembly and fine-tuning the structure-property relationship. Also, some highlights will be given on our initial investigation on how hard minerals are synthesized by natural molecules through the self-assembly processes. / Singapore-MIT Alliance (SMA)

Adsorption of monolayers and multilayers of metal-free and metal phthalocyanines molecules on metal surfaces has been investigated using complementary microscopic and synchrotron-based spectroscopic techniques. It was observed by STM measurements that at monolayer coverage the adsorption direction of the metal-free phthalocyanine molecules with respect to the gold surface vary as a function of temperature, i.e. at room temperature (RT) and low temperature (LT). It was explained by the difference in strength of intermolecular and adsorbate-substrate interactions at room and low temperatures. Nature of the interaction between adsorbed species and the surfaces as a function of coverage has been further characterized by XPS measurements. Binding energy shifts as a function of coverage have been attributed to initial- and final-state effects, the latter being due to different core-hole screening for the different molecular coverage. The alignment of molecular films at both monolayer and multilayer coverages, which has been determined by XAS measurements in several cases, is also dependent upon the relative strength of molecule-molecule versus molecule-substrate interaction. Parallel alignment of the molecular film with respect to the surface is the result of significant interaction between the adsorbate and the substrate, whilst standing geometry of the molecular film is due to more significant intermolecular interactions. DFT simulations have provided further information on the nature of the adsorbate-substrate interaction as well as contribution of different molecular orbitals in XPS and XAS spectra. Moreover, investigation of alkali interaction with the phthalocyanine films revealed a significant modification in their geometric and electronic structures due to charge transfer from the alkali metal to the molecular film. However, no sign of metallization of the molecules has been observed by spectroscopic and microscopic studies.

<p>This dissertation focuses on a very special topic in the field of Nuclear Magnetic Resonance (NMR) in solution: Intermolecular Multiple Quantum Coherences, or iMQCs, which can only be created by intermolecular dipolar couplings. Since the very beginnings of NMR, it has been known that dipolar couplings dominate the solid-state linewidth for spin-1/2 nuclei, but the effects are still not fully understood. The angular dependency (1-3cos2&#952;ij) and distant dependency (rij-3) of dipolar coupling led to an oversimplified conclusion that it can be ignored in an isotropic liquid. Thus, it was surprising when COSY Revamped by Asymmetric Z-gradient Echo Detection (CRAZED) was first introduced in the early `90s and showed strong iMQC signals. Since then, CRAZED has inspired a wide range of applications for iMQCs and led to two different but equivalent mathematical frameworks to describes these effects, which we call the conventional DDF theory.</p><p>However, several disagreements between the conventional DDF theory and experiments have grasped our attention recently. This dissertation will: first, demonstrate how conventional picture fails by two examples, Multi-axis CRAZED (MAXCRAZED) and Gradient-embedded COSY Experiment (GRACE); second, provide a corrected DDF theory; and, third, discuss what impact this correction will bring.</p><p>Intermolecular double quantum coherences (iDQCs) are very sensitive to the local anisotropy (10&#956;m - 1mm) and can be used to create positive contrast highlighting superparamagnetic iron oxide nanoparticles (SPIONs). This dissertation will show the design and optimization of iDQC anisotropy by a series of phantom experiments. A set of numerical simulations will then be provided for a sub-voxel level explanation. We will also demonstrate how the newly corrected DDF theory can be quickly adapted to improve the iDQC anisotropy.</p><p>Finally, as a side product of this research, the mechanism of diacetyl hydration/dehydration as solved by NMR will be provided.</p> / Dissertation

The PhD work "Hydroacylation and C-N coupling Reactions. Mechanistic Studies and Application in the Nucleoside Synthesis" tackle two different objectives, a) developing new methods of synthesis of nucleosides (introduction, and chapters 1 and 2) and b) to carry out a mechanistic study of the intermolecular hydroacylation and hydroiminoacylation reaction with and cationic rhodium complexes (chapter 3). Concerning the synthesis nucleosides, in chapter 1 we have explored new methods of synthesis of 2',3'-dideoxynucleosides and isonucleosides using a palladium or copper catalyzed C-N coupling reaction, aiming to overcome the stereoselectivity problems of the glycosylation reaction. The synthesis of the iodo-vinyl derivatives required as starting materials has been tried by different procedures, all of them unsuccessful. Finally, the coupling reaction has been explored in 1-iodo-glucal derivatives. Palladium catalysts were unsuccessful in coupling with benzimidazol used as model of purinic bases. Copper catalysts provided very low conversions. However, the oxidative addition of 1-iodo-glucal to palladium was proved and it was also observed that the reaction with aniline proceeds. That, suggest that the problem is in the steps involving the benzimidazol.In chapter 2, it has been developed a new method of synthesis of carbocyclic nucleosides using and enantioselective intramolecular hydroacylation reaction as a key step. This reaction leaded to the 3-hydroxymethyl-cyclopentanones in good yields and excellent enantioselectivities. When (S,S)-Me-Duphos was used the 3S-cyclopentanone was obtained, in contrast whether the (R,R)-Me-Duphos was employed the reaction proceed giving the opposite enantiomer. In both cases. The reduction of the ketone can be carried out in a stereoselective way using a hydroxyl-assited reduction with NaBH(OAc)3. Alternatively, the diastereomeric mixture obtained by a direct reduction can be resolved by using a DKR process using a combined enzyme/Ru complex catalytic system. A Mitsunobu reaction has allowed finally to link adenine to the cyclopentane moiety. In the third chapter, the mechanism of both cationic and neutral rhodium catalyst precursors in the hydroiminoacylation of alkenes was studied. The oxidative addition step was studied using both NMR and DFT techniques. Using the neutral complex, this step is a thermodynamically favoured process, as demonstrated by the isolation of the stable complex. Furthermore, DFT calculations showed the existence of an agostic intermediate on the route to the C-H activation product. In the cationic system, the oxidative addition reaction was shown by DFT calculations to be an endothermic process, hence un-favoured. This was in agreement with the NMR experiments, in which an oxidative addition product was only detected in the presence of a chloride source. Furthermore, the transition states involved in both systems were identified using DFT calculations, which proved that the presence of chloride not only stabilize the oxidative addition product but also lower the energy barrier of the overall process.Using the neutral system, it was identified the coupling product still coordinated to rhodium, which is in an enamine tautomeric form. After removal of the coupling product the stable complex [Rh(&#956;-Cl)(PPh3)2]2 was formed. This species was reported as a precursor for the oxidative addition step, from which the catalytic cycle can start again. However in the cationic system, the system did not yield any stable rhodium species and quickly evolved towards decomposition. / Durante la última década la terapia del SIDA ha experimentado una evolución notable. El conocimiento del modo de actuación y proliferación del virus ha permitido incrementar el número de dianas biológicas para su neutralización. Así, hoy en día se conocen compuestos que inhiben la entrada del virus en la célula, la transcripción del RNA en DNA, la integración del DNA vírico en DNA celular, la producción del envolvente proteico del virus, entre otros. Todo ello, ha permitido la realización de tratamientos dirigidos a diferentes dianas, que han neutralizado la evolución del virus mejorando la calidad de vida de los pacientes.Existen numerosas metodologías diseñadas para obtener los retrovirales mencionados anteriormente, pero en la mayoría de ellas se requieren numerosos pasos de síntesis y además en muchas de ellas se obtienen mezclas de los isómeros &#945;/&#946;. De este modo se pretende diseñar una alternativa sintética general para la preparación de la familia de nucleósidos arriba indicadas y al mismo tiempo que sea una alternativa práctica y eficaz a los métodos descritos hasta el momento.En el capítulo uno la obtención de isonucleosidos y 2',3'-dideoxinucleosidos se abordó utilizando como etapa clave de reacción el acoplamiento C-N entre los derivados de 4-halo-2,3-dihidrofurano y 5-halo-2,3-dihidrofurano con bases púricas y pirimidínicas, la posterior hidrogenación enantioselectiva del doble enlace nos permitiría obtener los mencionados compuestos de una forma sencilla. En el estudio realizado bajas conversiones de los productos de acoplamiento cruzado fueron detectados aunque actualmente se están intentado mejorar los resultados.Referente a la obtención de carbociclonucleosidos abordada en el capítulo 2, se ha llevado cabo una nueva metodología sintética en la que se ha aplicado la reacción de hidroacilación intramolecular enantioselectiva catalizada por rodio. Así pentenales substituidos en posición cuatro han sido convertidos en las ciclopentanonas correspondientes. En función de la quiralidad de la fosfina empleada se han obtenido tanto los enantiomeros R como S con excelentes conversiones y enantioselectividades.Con el fin de incorporar la base nitrogenada en la ciclopentanona la reducción diastereoselectiva se ha llevado a cabo dos procedimientos: a) reducción racémica de la ciclopentanona y posterior resolución cinética dinámica, b) reducción diastereoselectiva utilizando como agente reductor el triacetoxiborohidruro de sodio. En ambos casos se obtuvieron diastereoselectividades excelentes pudiendo así obtener un distereoisomero u otro en función del procedimiento y el enantiomero utilizado como material de partida. La posterior reacción de Mitsunobu sobre el alcohol y la desprotección del grupo protector nos ha permitido obtener el carbociclonucleosido con buenos rendimientos y excelentes esteroselectividades.En el capitulo tres se ha realizado un estudio sobre la reacción de hidroacilación intramolecular de alquenos cataliza por rodio, donde se ha estudiado la diferencia de comportamiento de los sistemas catiónicos y neutros de rodio en la etapa de adición oxidante. Estos estudios se han realizado utilizando técnicas espectroscópicas de resonancia magnética nuclear y cálculos teóricos mediante técnicas DFT. El estudio computacional ha mostrado que en el caso de los sistemas neutros la etapa de adición oxidante es una etapa termodinámicamente favorable hecho que se gratifica con el hecho de que el producto de adición oxidante es estable y aislable. Además se ha encontrado la existencia de un intermedio agóstico en el proceso de activación del enlace C-H. Sin embargo, en los sistemas catiónicos la etapa de adición oxidante resultó ser un proceso endotérmico. Los estados de transición encontrados no solo han demostrado que la presencia de cloruro estabiliza el producto de adición oxidante sino que también disminuye la barrera energética del proceso global. La etapa de inserción del alqueno también fue estudiada para ambos sistemas utilizando estireno como sustrato. En el sistema neutro se detectó una nueva especie de rodio la cual no había sido descrita anteriormente y fue completamente caracterizada mediante RMN multinuclear.En el sistema catiónico se consiguió detectar el hidruro correspondiente al producto de adición oxidante el cual también fue completamente caracterizado por técnicas de RMN. Sin embargo, en el estudio de la inserción del alqueno no se observó la ningún producto que indicase que el mencionado proceso se llevará acabo indicado que la inserción de alqueno es además la etapa lenta del proceso.

No description available.

Cette étude considère des systèmes où non seulement la structure moléculaire, mais les conditions expérimentales sont impliquées. Les structures chimiques ont été codées par des descripteurs locaux ISIDA MA ou ISIDA CGR, ciblant spécifiquement les centres actifs et leur environnement le plus proche. Les descripteurs locaux ont été combinés avec les paramètres spécifiques des conditions expérimentales, codant ainsi un objet chimique particulier. La méthodologie a été appliquée avec succès pour la modélisation QSPR des paramètres thermodynamiques et cinétiques des interactions intermoléculaires (liaisons halogène et hydrogène), des équilibres tautomères et des réactions chimiques (cycloaddition et SN1). La méthode GTM a été appliquée pour la première fois pour la modélisation et la visualisation de données chimiques mixtes. La méthode sépare avec succès les groupes de données à la fois en raison des structures et des conditions. / This work describes original approaches for predictive chemoinformatics modeling of molecular interactions and reactions as a function of the structures of interacting partners and of the chemical environment (experimental conditions). Chemical structures have been encoded by local ISIDA MA-based or CGR-based descriptors, specifically targeting the active centers and their closest environment. The local descriptors have been combined with the specific parameters of experimental conditions, thereby encoding a particular chemical object. The methodology has been successfully applied for QSPR modeling of thermodynamic and kinetic parameters of intermolecular interactions (halogen and hydrogen bonds), tautomeric equilibria and chemical reactions (cycloaddition and SN1). GTM method has been applied for the first time for QSPR modeling and visualization of mixed chemical data. This method successfully separates data clusters on account of both chemical structures and experimental conditions.

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / In this work is described the intermolecular interactions and the molecular topology present in the crystal packing of 3-amine-4-halo-5-methylisoxazoles. First was described the obtention of the 3-amine-4-halo-5-methylisoxazoles by halogenations of the compound 3-amine-5-methylisoxazol with N-chlorosuccinimide, N-bromosuccinimide and N-iodoosuccinimide. The crystal packing of the 3-amine-4- halo-5-methylisoxazoles show a great variety of intermolecular interactions such as: hydrogen bonding, halogen bonding, π π interactions and C-H π interactions. Further analysis of crystal packing showed that these compounds have a molecular coordination number equal to 14. The correlation between molecule molecule energy contact and the contact area between the molecules showed that, with the exception of dimmers formed by strong hydrogen bonds, all the other interactions have a large dependence of the contact area. The melting enthalpy of the 3-amine-4- halo-5-methylisoxazoles grows with the increases of the total energy of the contacts of the clusters, showing that these physic property depends of the intermolecular interactions present in the crystal. The analysis of theory levels used to determine the molecule molecule energies contact demonstrates that, when is used the method counterpoise for basis set superposition error (BSSE), the level of theory MP2/Augcc- pVDZ show energy values very close to the energy at the MP2/cc-pVTZ level of theory. The functional B97-D and ωB97X-D, based on the DFT theory, also showed satisfactory energy values, very close to those obtained by MP2. / Neste trabalho são descritas as interações intermoleculares e a topologia molecular referente ao empacotamento cristalino de 3-amino-4-halo-5-metilisoxazóis. Primeiramente foi descrita a obtenção dos 3-amino-4-halo-5-metilisoxazóis através da halogenação do composto 3-amino-5-metilizoxazol com N-clorosuccinimida, Nbromosuccinimida e N-iodosuccinimida. O empacotamento cristalino dos 3-amino-4- halo-5-metilisoxazóis apresentou uma grande diversidade de interações intermoleculares incluindo: ligações de hidrogênio, ligações de halogênio, interações π π e C-H π. Uma análise mais detalhada do empacotamento cristalino demonstrou que estes compostos apresentam um número de coordenação molecular igual a 14. A correlação entre a energia de contato molécula molécula e a área de contato entre as moléculas demonstrou que, com exceção dos dímeros formados por ligações de hidrogênio fortes, as demais interações apresentam uma grande dependência da área de contato. A entalpia de fusão dos 3-amino-4-halo-5- metilisoxazol aumenta com o aumento da energia total do cluster demonstrando que esta propriedade física está vinculada as interações intermoleculares presentes no cristal. A análise dos níveis de teoria utilizados para determinar as energias de contato molécula molécula demonstra que ,quando utilizado o método counterpoise para o erro de sobreposição de bases (BSSE), o nível de teoria MP2/Aug-cc-pVDZ apresentou valores de energia muito próximos ao do nível MP2/cc-pVTZ. Os funcionais B97-D E ωB97X-D, baseados na teoria DFT também apresentaram valores de energia satisfatórios, muito próximos aos obtidos pelo MP2.