Orientador: João Batista Fogagnolo / Dissertação (mestrado) - Universidade Estadual de Campinas, Faculdade de Engenharia Mecânica / Made available in DSpace on 2018-08-22T19:20:36Z (GMT). No. of bitstreams: 1 Rodrigues_AdilsonVitor_M.pdf: 9962654 bytes, checksum: f1f7f3888d618e2a6c70858afd45723b (MD5) Previous issue date: 2013 / Resumo: O resumo poderá ser visualizado no texto completo da tese digital / Abstract: The abstract is available with the full electronic document / Mestrado / Materiais e Processos de Fabricação / Mestre em Engenharia Mecânica

The focus of this research is to explore the molecular-level interactions between reactive metal surfaces and aqueous environments by combined ultra-high vacuum/electrochemistry (UHV-EC) methodology. The objectives of this work are to understand (1) the effects of sulfate ions on the passivity of metal oxide/hydroxide surface layer, (2) the effects of sulfur-modification on the evolution of metal oxide/hydroxide surface layer, and (3) the effects of sulfur adsorbate on cation adsorption at metal surfaces.

Diversos pesquisadores vêm sugerindo o uso de glicerol e outros alcoóis como matéria-prima para produção de bens de maior valor agregado e para geração de energia elétrica, através de células a combustível. Contudo, o sucesso dessas tecnologias de conversão depende do desenvolvimento de catalisadores mais eficientes. Nesse aspecto, abordagens teóricas se apresentam como ferramentas auxiliares, capazes de fornecer informações difíceis de serem acessadas experimentalmente e que são fundamentais para o projeto de materiais mais eficientes. Nesta tese, foram investigados, via teoria do funcional da densidade (DFT), o papel de defeitos de superfície e efeitos de tensão na adsorção de alcoóis como metanol, etanol e glicerol, sobre superfícies Pt(111) contendo defeitos e ligas de Pt3Ni(111). Para melhorar a descrição dos sistemas de adsorção, foi adicionada a correção de dispersão DFT-D3 à abordagem da DFT. Através da dinâmica molecular empregando o potencial ReaxFF, foram estudados os efeitos de temperatura sobre glicerol, em diversos níveis de recobrimento de superfície, interagindo com os substratos Pt3Ni(111). Os resultados mostram que o glicerol se liga através do oxigênio dos grupos hidróxi aos sítios top de metais de transição (TM), orientando sua cadeia carbônica quase que totalmente paralela à superfície. Os cálculos de energia de adsorção indicam que o glicerol interage mais fortemente com sítios de baixa coordenação, presentes em superfícies com defeitos, o que pode ser compreendido por meio do modelo da banda d. Além disso, a presença de múltiplos sítios de baixa coordenação favorece configurações onde o glicerol se liga à superfície por dois grupos hidróxi, um central e um terminal. Entretanto, existe uma clara preferência de alcoóis se ligarem a sítios de adsorção catiônicos, indicando que a influência de interações Coulombianas é um fator preponderante no processo de adsorção de alcoóis sobre TM. Análises de densidade eletrônica dos sistemas adsorvidos sugerem que a adsorção promove perturbações na densidade eletrônica dos alcoóis, como o deslocamento de densidade eletrônica das ligações C-O e O-H para a região de interação entre a molécula e o substrato, que estão associadas ao estiramento/enfraquecimento das ligações C-O e O-H observados através de análises estruturais. Os resultados DFT também demonstraram que a adição da correção de dispersão DFT-D3 melhorou a descrição das energias de adsorção e se mostrou essencial para reproduzir a tendência do crescimento da energia de adsorção com o tamanho molecular dos alcoóis, enquanto sua natureza atrativa promoveu a diminuição das distâncias atômicas entre alcoóis e substratos. O estudo de dinâmica molecular mostrou que a configuração de adsorção DFT se mantém apenas em temperaturas próximas de 0 K e que outras configurações são favorecidas a temperaturas mais altas. A presença de outras moléculas de glicerol promove, mediante o aquecimento do sistema, a formação de aglomerados de moléculas ligadas através de interações de hidrogênio, o que estabiliza as moléculas e, provavelmente, retarda seu processo de dessorção. Nos sistemas com maior densidade de moléculas, observou-se, ao final da simulação, a formação de fragmentos CH3OH-CHOH-CH2O- e átomos de H adsorvidos na superfície, indicando a quebra de ligações O-H do grupo hidróxi terminal. / Several researchers have been suggesting the use of glycerol and other alcohols as a feedstock to produce higher value-added goods and electricity through fuel cells. However, the success of these conversion technologies depends on the development of efficient catalysts. In this context, theoretical approaches are useful tools that are able to yield important insights that could not be easily obtained from experiments and are fundamental for the future design of more efficient materials. Hence, in this thesis, we investigated via density functional theory (DFT) the role of surface defects and strain effects on the adsorption of methanol, ethanol and glycerol on defected Pt(111) and Pt3Ni-based surfaces. To improve the description of the adsorbed systems, we added the van der Waals (vdW) correction DFT-D3 to the DFT approach. We also studied through molecular dynamics, employing the ReaxFF potential, the effects of temperature on the glycerol, considering different levels of surface coverage, interacting with the Pt3Ni(111) substrates. Our results show that the glycerol binds through the oxygen from a terminal hidroxi group to top sites of transition-metals (TM) with the carbon chain almost parallel to the surface. The calculations of adsorption energy indicate that glycerol interacts strongly with low-coordinated sites, such as those of surface defects, which can be rationalized through the d-band model. Furthermore, the presence of multiple low-coordinated sites was related with configurations where the glycerol binds to the substrates by two hidroxi groups, the central and a terminal one. However, there is a clear preference of the alcohols to bind on cationic adsorption sites, which indicates that the Coulomb interactions play a major role on the adsorption process of alcohols on TM. Electron density analyzes suggest that the adsorption promotes perturbations in the electronic density of the alcohols, such as a partial displacement of electron density from the C-O and O-H bonds to the region between the molecule and the substrate, which are related with the stretching/weakening of the C-O e O-H, as found in the structural analyzes. The DFT results also show that the addition of the DFT-D3 dispersion correction enhanced the adsorption energies and was essential to reproduce correctly the dependence of the binding energy with the molecule size, while its attractive nature promoted the decrease of the atomic distances between alcohols and substrates. The molecular dynamics showed that the glycerol DFT lowest energy adsorption configuration is maintained for temperatures close to 0 K whereas different configurations are favored in higher temperatures. In the presence of multiple glycerol molecules, the heating of the system promotes the formation of molecular clusters bound through hydrogen interactions, which stabilize the molecules and, probably, delay the desorption process. In the systems with higher molecular density, we found that CH3OH-CHOH-CH2O- fragments and H atoms are formed in the end of the simulation, which indicates that the breaking of O-H bonds from the terminal hidroxi groups is promoted.

This thesis details the development of expertise and tools required for the study of amino acids deposited on Au(111), with a primary focus on the design and testing of a Knudsen cell for controlled deposition of L-cysteine and L-methionine. An ultra-high vacuum preparation chamber designed by Dr. Katie Mitchell and built by Torrovap Industries Inc. was installed. This chamber is connected to the existing scanning tunneling microscopy chamber via a gate valve, and both chambers can operate independently. Various instruments such as a mass spectrometer, quartz crystal microbalance, ion source, and sample manipulator were installed on the preparation chamber. Scanning tunneling microscopy was performed on both homemade and commercial Au(111) thin films. High resolution images of "herringbone" reconstruction and individual atoms were obtained on the commercial thin films, and optimal tunneling conditions were determined. A Knudsen cell was designed to be mounted on the preparation chamber. The Knudsen cell operates over the temperature range 300-400K, with temperatures reproducible to ±0.5K, and stable to ±0.1K over a five minute period. Reproducible deposition rates of less than 0.2Ǻ/s were obtained for both L-cysteine and L-methionine. Electron impact mass spectrometry and heat of sublimation measurements were performed to characterize the effusion of L-cysteine and L-methionine from the Knudsen cell. The mass spectrometry results suggest that L-cysteine was decomposing at 403K while L-methionine was stable during effusion. Heats of sublimation of 168.3±33.2kJ/mol and 156.5±10.1kJ/mol were obtained for L-cysteine and L-methionine respectively.

This thesis details the development of expertise and tools required for the study of amino acids deposited on Au(111), with a primary focus on the design and testing of a Knudsen cell for controlled deposition of L-cysteine and L-methionine. An ultra-high vacuum preparation chamber designed by Dr. Katie Mitchell and built by Torrovap Industries Inc. was installed. This chamber is connected to the existing scanning tunneling microscopy chamber via a gate valve, and both chambers can operate independently. Various instruments such as a mass spectrometer, quartz crystal microbalance, ion source, and sample manipulator were installed on the preparation chamber. Scanning tunneling microscopy was performed on both homemade and commercial Au(111) thin films. High resolution images of "herringbone" reconstruction and individual atoms were obtained on the commercial thin films, and optimal tunneling conditions were determined. A Knudsen cell was designed to be mounted on the preparation chamber. The Knudsen cell operates over the temperature range 300-400K, with temperatures reproducible to ±0.5K, and stable to ±0.1K over a five minute period. Reproducible deposition rates of less than 0.2Ǻ/s were obtained for both L-cysteine and L-methionine. Electron impact mass spectrometry and heat of sublimation measurements were performed to characterize the effusion of L-cysteine and L-methionine from the Knudsen cell. The mass spectrometry results suggest that L-cysteine was decomposing at 403K while L-methionine was stable during effusion. Heats of sublimation of 168.3±33.2kJ/mol and 156.5±10.1kJ/mol were obtained for L-cysteine and L-methionine respectively.

Die Dichtefunktionaltheorie (DFT) einschließlich Dispersionkorrekturen (+D) wird mit der Random-Phase-Approximation (RPA) für die Adsorption von Alkanen auf der Pt(111)-Oberfläche verglichen. RPA wird zuerst im Hinblick auf relevante technische Parameter evaluiert und für die Methanadsorption an der Pt(111)-Oberfläche getestet. Im Vergleich zum Perdew-Burke-Ernzerhof-Funktional (PBE) mit Tkatchenkos Many-Body-Dispersionskorrektur (PBE+MBD) liefert RPA gute Ergebnisse. Auch reproduziert RPA experimentelle Adsorptionsenergien bei verschiedenen, physikalisch sinnvollen Beladungsstufen der Pt(111) Oberfläche mit Alkanmolekülen. Für Platin in der hexagonal dichtesten Kugelpackung sagt RPA richtigerweise die Methanadsorption an der hollow-tripod-Stelle voraus, während mit PBE+MBD die Adsorption an einer anderen Stelle bevorzugt wäre. Dies geht aus Schwingungsspektren hervor. Da periodisches RPA sehr rechenaufwändig ist, wird ein QM:QM Hybridansatz (QM=Quantenmechanik) angewendet, wobei periodisches PBE(+D) mithilfe von RPA Rechnungen an Clustern korrigiert wird (RPA:PBE(+D)). In einem Test verschiedener Dispersionskorrekturen schneiden RPA:PBE und RPA:PBE+MBD am besten ab. Diese Arbeit ist wegbereitend für die Anwendung des QM:QM Hybridansatzes zur Beschreibung der Adsorptionsprozesse an Metalloberflächen ‒ bei hoher Genauigkeit und deutlich verringertem Rechenaufwand. Auch Kresses low-scaling RPA Algorithmus wird getestet. Dieser Algorithmus ermöglicht, große Systeme, wie z.B. die Methan-, Ethan-, Propan- und n-Butanadsorption an Pt(111), zu untersuchen. Der Vergleich mit experimentellen Daten zeigt, dass mit RPA stets die beste Übereinstimmung erreicht wird. Dabei wird eine deutliche Verbesserung gegenüber allen untersuchten Dichte-Funktionalen erzielt. Obwohl Bindungen mit RPA etwas zu schwach vorhergesagt werden, ist es die derzeit beste Methode zur Untersuchung der Adsorption an Metalloberflächen und damit der Benchmark für diese Systeme. / Density Functional Theory (DFT) including dispersion (+D) is compared against the Random Phase Approximation (RPA) for the adsorption of alkanes on the Pt(111) surface. RPA is first benchmarked with respect to technical parameters and tested for methane adsorption on Pt(111). It is found to perform well relative to the Perdew–Burke–Ernzerhof (PBE) functional augmented with the many-body dispersion scheme of Tkatchenko (PBE+MBD). It also compares well relative to experimentally derived adsorption energies at physically relevant coverages. RPA correctly assigns the adsorption of methane to the hcp (hexagonal close packed) hollow tripod site, matching vibrational spectra, whereas PBE+MBD found another site. Given the high cost of periodic RPA, a high-level: low-level QM:QM (QM = quantum mechanics) hybrid approach is applied using RPA (RPA:PBE(+D)), which has also been tested with several dispersion corrections, with RPA:PBE and RPA:PBE+MBD performing best. This extends the QM:QM hybrid approach to the study of adsorption on metal surfaces, resulting in high accuracy at significantly reduced cost. Finally we test the performance of the low-scaling RPA algorithm of Kresse and co-workers. This algorithm enables the study of larger systems and is applied to the first four n-alkanes (C1-C4) on the Pt(111) surface. Comparison against experiment indicates that RPA offers the best agreement, consistently better than any studied density functional. RPA underbinds slightly but is still found to be the best method for studying adsorption on metal surfaces and is the current benchmark for such systems.

Cette thèse est une étude théorique sur la interface de porphyrine de cobalt avec des surfaces métalliques avec le code VASP DFT. Le cadre DFT nécessaire a été introduit dans le chapitre 1. La structure de la jBardeen, une programme ecrit en Java, pour la simulation de la STM est expliqué dans le chapitre 2 et le code source est jointe en annexe. Une étude de l'adsorption de CoTPP sur les surfaces métalliques a été entrepris dans le chapitre 3. Différents paramètres de calcul ont été évalués: Le site d'adsorption et de la géométrie à la fois la molécule et la surface ont été étudiés par rapport à la xc-fonctionnel et correction de la dispersion utilisée. Une adsorption site le plus stable est identifié. Par conséquent, ce site plus stable a été étudiée pour sa structure électronique. Calculés images STM avec le code jBardeen ont été comparés avec une experimentation de CoTPP Cu sur une surface (111) avec une couverture sous monocouche. Dans le chapitre 4, un adatome Fe a été présenté à la CoTPP sur Ag système (111). Trois sites de liaison symétrique différentes pour l'atome Fe ont été identifiés sur le macrocycle, marqué les , bi-, brd- et bru-positions. Un moment magnétique pouvait être attestée qui a été principalement situé sur l'atome Fe. Voies possibles entre les quatre, symétriquement équivalentes, sites bi- ont été étudiées avec des méthodes différentes. Simples calculs dans le vacuum et calculs de la “Nudged Elastic Band” (NEB) de l'ensemble du système a révélé une hauteur de barrière légèrement au-dessus de 0,2 eV allant de position bi à la posititon brd. Une analyse de vibration a montré que la commutation de l'atome Fe est susceptible, lorsqu'il est perturbé hors d'équilibre dans les positions brd et bru. / This thesis is a theoretical study on the cobalt porphyrin - coinage metal surface interface with the DFT code VASP. The necessary DFT framework has been introduced in chapter 1. The structure of the Java program jBardeen for STM simulation is explained in chapter 2 and the source code is attached as Appendix. A study of the adsorption of CoTPP on coinage metal surfaces has been undertaken in chapter 3. Different parameters of the calculation have been evaluated: the adsorption site and the geometry of both the molecule and surface have been investigated with respect to the xc-functional and dispersion correction used. A most stable adsorption site -bridge down- is identified. Consequently, this most stable site was investigated for its electronic structure. Calculated STM images with the jBardeen code were compared with an experiment of CoTPP on a Cu(111) surface with sub monolayer coverage. In chapter 4 an Fe adatom was introduced to the CoTPP on Ag(111) system. Three symmetrically different binding sites for the Fe atom were identified on the macrocycle, labelled the bi-, brd- and bru-positions for bisector, bridge down and bridge up respectively. A magnetic moment could be evidenced which was mainly located on the Fe atom. Possible pathways between the four symmetrically equivalent bisector sites were investigated with different methods. Single point calculations in vacuum and Nudged Elastic Band (NEB) of the whole system revealed a barrier height of slightly above 0.2 eV going from bi- to the brd-position. A vibrational analysis showed that switching of the Fe atom is likely, when perturbed out of equilibrium in the brd- and bru- positions.