TY - THES A1 - Heiden, Sophia L. T1 - Water at α-alumina surfaces T1 - Wasser auf alpha-Aluminiumoxid-Oberflächen BT - energetics, dynamics and kinetics BT - Energetik, Dynamik und Kinetik N2 - The (0001) surface of α-Al₂O₃ is the most stable surface cut under UHV conditions and was studied by many groups both theoretically and experimentally. Reaction barriers computed with GGA functionals are known to be underestimated. Based on an example reaction at the (0001) surface, this work seeks to improve this rate by applying a hybrid functional method and perturbation theory (LMP2) with an atomic orbital basis, rather than a plane wave basis. In addition to activation barriers, we calculate the stability and vibrational frequencies of water on the surface. Adsorption energies were compared to PW calculations and confirmed PBE+D2/PW stability results. Especially the vibrational frequencies with the B3LYP hybrid functional that have been calculated for the (0001) surface are in good agreement with experimental findings. Concerning the barriers and the reaction rate constant, the expectations are fully met. It could be shown that recalculation of the transition state leads to an increased barrier, and a decreased rate constant when hybrid functionals or LMP2 are applied. Furthermore, the molecular beam scattering of water on (0001) surface was studied. In a previous work by Hass the dissociation was studied by AIMD of molecularly adsorbed water, referring to an equilibrium situation. The experimental method to obtaining this is pinhole dosing. In contrast to this earlier work, the dissociation process of heavy water that is brought onto the surface from a molecular beam source was modeled in this work by periodic ab initio molecular dynamics simulations. This experimental method results in a non-equilibrium situation. The calculations with different surface and beam models allow us to understand the results of the non-equilibrium situation better. In contrast to a more equilibrium situation with pinhole dosing, this gives an increase in the dissociation probability, which could be explained and also understood mechanistically by those calculations. In this work good progress was made in understanding the (1120) surface of α-Al₂O₃ in contact with water in the low-coverage regime. This surface cut is the third most stable one under UHV conditions and has not been studied to a great extent yet. After optimization of the clean, defect free surface, the stability of different adsorbed species could be classified. One molecular minimum and several dissociated species could be detected. Starting from these, reaction rates for various surface reactions were evaluated. A dissociation reaction was shown to be very fast because the molecular minimum is relatively unstable, whereas diffusion reactions cover a wider range from fast to slow. In general, the (112‾0) surface appears to be much more reactive against water than the (0001) surface. In addition to reactivity, harmonic vibrational frequencies were determined for comparison with the findings of the experimental “Interfacial Molecular Spectroscopy” group from Fritz-Haber institute in Berlin. Especially the vibrational frequencies of OD species could be assigned to vibrations from experimental SFG spectra with very good agreement. Also, lattice vibrations were studied in close collaboration with the experimental partners. They perform SFG spectra at very low frequencies to get deep into the lattice vibration region. Correspondingly, a bigger slab model with greater expansion perpendicular to the surface was applied, considering more layers in the bulk. Also with the lattice vibrations we could obtain reasonably good agreement in terms of energy differences between the peaks. N2 - Das wissenschaftliche Interesse an der Untersuchung von Oberflächen hat in den letzten Jahren stark zugenommen. Oberflächen spielen unter anderem in Katalyse, Nanotechnologie und Korrosionsforschung eine wichtige Rolle. Es wurden nicht nur Fortschritte im experimentellen Bereich, sondern auch in der theoretischen, computergestützten Analyse dieser Systeme erzielt. Durch leistungsstärkere Computer und ausgefeiltere Software mit immer besseren Methoden können heutzutage wesentlich größere, komplexere Systeme mit höherer Genauigkeit untersucht werden, als noch vor zehn Jahren. In dieser Arbeit wurden derartige Rechnungen angewandt, um Prozesse der α-Aluminiumoxid-Oberfläche besser zu verstehen. Es wurde in drei Teilprojekten wissenschaftlichen Fragestellungen zu Aufbau, Stabilität, Wasseradsorption, Reaktivität und Schwingungseigenschaften nachgegangen, letztere auch im Vergleich zu experimentellen Befunden. Im ersten Teilprojekt wurde auf ein bekanntes Problem der genutzten Methodik eingegangen. Wie aus der Literatur bekannt ist, werden bei dem Dichtefunktional PBE, das in dieser Arbeit hauptsächlich verwendet wurde, die Reaktionsbarrieren unterschätzt, und somit Raten überschätzt. Mit Hilfe zweier unterschiedlicher Methoden konnte dieses Problem deutlich verbessert werden, sodass die Barrieren erhöht und die Raten verringert wurden, was mehr dem Bild der Realität entspricht. Diese Methoden sind zum einen die sogenannten Hybridfunktionale und zum anderen lokale Møller-Plesset Störungstheorie. Außerdem wurden Adsorptionsenergien und Vibrationen berechnet und mit vorherigen Rechnungen, sowie experimentellen Daten verglichen. In einem zweiten Teilprojekt wurde die Streuung von Wasser an der Oberfläche untersucht. In einem Molekularstrahlexperiment konnte kürzlich nachgewiesen werden, dass sich die Dissoziationswahrscheinlichkeit im Vergleich zur Pinhole-Dosierung erhöht (beides sind Methoden um Wasser auf die Oberfläche aufzubringen). In dieser Arbeit konnte dies durch Simulationen nachgewiesen und mechanistisch aufgeklärt werden. Ein weiteres Teilprojekt befasste sich mit der (112‾0)-Oberfläche, zu der es bislang wenige Untersuchungen gibt. Hier wurde zunächst die Oberfläche ohne Wasser untersucht, um die Beschaffenheit zu erkunden. Anschließend wurde das Verhalten eines Wassermoleküls auf der Oberfläche untersucht. Es kann sowohl molekular adsorbieren, als auch in seine Bestandteile OH und H dissoziiert vorliegen, wobei die dissoziierten Strukturen wesentlich stabiler sind. Die Reaktionsraten für Dissoziation und Diffusion wurden untersucht. Erstere sind sehr schnell (Größenordnung 10¹² pro Sekunde) und letztere können einen weiten Bereich abdecken (10⁻¹³-10⁶s⁻¹). Im Vergleich mit oberflächenspezifischen Schwingungsspektroskopie-Experimenten konnte gute Übereinstimmung gefunden werden. So waren wir in der Lage, die jeweiligen OD Gruppen jeder Schwingung den experimentellen Daten zuzuweisen, wobei D hier Deuterium, also schwerer Wasserstoff ist. KW - surface science KW - alumina KW - water at alumina KW - theoretical chemistry KW - theoretische Chemie KW - Aluminiumoberfläche KW - Wasser auf Aluminiumoxid KW - Oberflächenchemie Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-426366 ER - TY - THES A1 - Xiong, Tao T1 - Vibrationally resolved absorption, emission, resonance Raman and photoelectron spectra of selected organic molecules, associated radicals and cations T1 - Schwingungsaufgelöste Absorptions-, Emissions-, Resonanz-Raman- und Photoelektronenspektren ausgewählter organischer Moleküle, assoziierter Radikale und Kationen BT - a time-dependent approach BT - ein zeitabhängiger Ansatz N2 - Time-dependent correlation function based methods to study optical spectroscopy involving electronic transitions can be traced back to the work of Heller and coworkers. This intuitive methodology can be expected to be computationally efficient and is applied in the current work to study the vibronic absorption, emission, and resonance Raman spectra of selected organic molecules. Besides, the "non-standard" application of this approach to photoionization processes is also explored. The application section consists of four chapters as described below. In Chapter 4, the molar absorptivities and vibronic absorption/emission spectra of perylene and several of its N-substituted derivatives are investigated. By systematically varying the number and position of N atoms, it is shown that the presence of nitrogen heteroatoms has a negligible effect on the molecular structure and geometric distortions upon electronic transitions, while spectral properties are more sensitive: In particular the number of N atoms is important while their position is less decisive. Thus, N-substitution can be used to fine-tune the optical properties of perylene-based molecules. In Chapter 5, the same methods are applied to study the vibronic absorption/emission and resonance Raman spectra of a newly synthesized donor-acceptor type molecule. The simulated absorption/emission spectra agree fairly well with experimental data, with discrepancies being attributed to solvent effects. Possible modes which may dominate the fine-structure in the vibronic spectra are proposed by analyzing the correlation function with the aid of Raman and resonance Raman spectra. In the next two chapters, besides the above types of spectra, the methods are extended to study photoelectron spectra of several small diamondoid-related systems (molecules, radicals, and cations). Comparison of the photoelectron spectra with available experimental data suggests that the correlation function based approach can describe ionization processes reasonably well. Some of these systems, cationic species in particular, exhibit somewhat peculiar optical behavior, which presents them as possible candidates for functional devices. Correlation function based methods in a more general sense can be very versatile. In fact, besides the above radiative processes, formulas for non-radiative processes such as internal conversion have been derived in literature. Further implementation of the available methods is among our next goals. N2 - Molekülsysteme bestehen aus Kernen und Elektronen, deren viel kleinere Masse sie in die Lage versetzten, sich der Bewegung des ersteren augenblicklich anzupassen. Daher ist die Bewegung der Elektronen und Kerne in einer guten ersten Annäherung "unabhängig", und die Energie der Elektronen kann zuerst berechnet werden, vorausgesetzt, die Kerne sind stationär. Die so gewonnene elektronische Energie wird zur Abstoßungsenergie zwischen den Kernen addiert, um ein Potential zu erhalten, das die Bewegung der Kerne bestimmt. Quantenmechanisch können sowohl die Elektronen als auch die Kerne nur bestimmte Energieniveaus haben. Die molekulare vibronische (= Schwingung + Elektronik) Absorptionsspektroskopie beinhaltet den Übergang der Elektronen und Kerne von ihrem Anfangs- in ihren Endzustand durch Photonenabsorption. Die größere elektronische Übergangsenergie bestimmt die Position des Absorptionsmaximums, während die kleinere nukleare Schwingungsübergangsenergie (ohne Berücksichtigung von Translation und Rotation) die Position der Teilmaxima innerhalb des Absorptionsbereichs bestimmt, wodurch die vibronische Feinstruktur entsteht. Ähnliche Ideen gelten auch für die vibronische Emissionsspektroskopie. Die Resonanz-Raman-Spektroskopie untersucht die Energieänderung des einfallenden Photons (dessen Energie ausreichend ist, um die Elektronen in einen höheren elektronischen Zustand anzuregen), nachdem es mit dem Molekül wechselwirkt. Der Energiegewinn oder -verlust des einfallenden Photons bewirkt eine Änderung des Schwingungszustandes. Die Photoelektronenspektroskopie ist ähnlich wie die vibronische Absorption, benötigt aber in der Regel mehr Energie des einfallenden Photons, da neben der Anregung des Moleküls in einen höheren vibronischen Zustand zusätzliche Energie benötigt wird, um ein Elektron aus dem Molekül zu entfernen. Diese spektroskopischen Techniken liefern wertvolle Informationen über die elektronische und nukleare Bewegung des Moleküls. Theoretisch können wir eine zeitabhängige Korrelationsfunktion verwenden, um die Spektren zu simulieren. Die Korrelationsfunktion für die Absorption ist beispielsweise eine Funktion der Zeit, deren Entwicklung Informationen über die elektronischen Energien und die nukleare Bewegung enthält. Um das Absorptionsspektrum in Form von Energie zu erhalten, wird ein mathematisches Verfahren, die so genannte Fourier-Transformation, auf die zeitabhängige Korrelationsfunktion angewendet, um ein energieabhängiges Spektrum zu erhalten. Diese Methode wird auf ausgewählte organische Moleküle, darunter einige Radikale und Kationen, angewandt, um deren elektronisches und optisches Verhalten unter dem Einfluss von einfallendem Licht zu untersuchen und Einblicke in das Design neuer optoelektronischer Bauelemente zu gewinnen. Bei einigen Molekülen/Systemen wird die vibronische Feinstruktur durch Faktoren wie molekulare Zusammensetzung und Umgebung wie Lösungsmittel beeinflusst, was darauf hindeutet, dass diese Systeme zur Feinabstimmung der gewünschten Eigenschaften verwendet werden können. Für andere Systeme gibt es fast keine sichtbare vibronische Feinstruktur, was bedeutet, dass sich die nukleare Bewegung solcher Systeme im Allgemeinen von derjenigen der vorherigen Kategorie unterscheidet. KW - vibrationally resolved electronic spectroscopy KW - photoelectron spectroscopy KW - resonance Raman spectroscopy KW - correlation function KW - ionization potential KW - time-dependent density functional theory KW - perylene KW - diamondoid KW - Schwingungsaufgelöste UV/VIS-Spektroskopie KW - Photoelektronenspektroskopie KW - Resonanz-Raman-Spektroskopie KW - Korrelationsfunktion KW - Ionisationspotential KW - Zeitabhängige Dichtefunktionaltheorie KW - Perylen KW - Diamondoide Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-418105 ER - TY - JOUR A1 - Muzdalo, Anja A1 - Saalfrank, Peter A1 - Vreede, Jocelyne A1 - Santer, Mark T1 - Cis-to-Trans Isomerization of Azobenzene Derivatives Studied with Transition Path Sampling and Quantum Mechanical/Molecular Mechanical Molecular Dynamics JF - Journal of chemical theory and computation N2 - Azobenzene-based molecular photoswitches are becoming increasingly important for the development of photoresponsive, functional soft-matter material systems. Upon illumination with light, fast interconversion between a more stable trans and a metastable cis configuration can be established resulting in pronounced changes in conformation, dipole moment or hydrophobicity. A rational design of functional photosensitive molecules with embedded azo moieties requires a thorough understanding of isomerization mechanisms and rates, especially the thermally activated relaxation. For small azo derivatives considered in the gas phase or simple solvents, Eyring’s classical transition state theory (TST) approach yields useful predictions for trends in activation energies or corresponding half-life times of the cis isomer. However, TST or improved theories cannot easily be applied when the azo moiety is part of a larger molecular complex or embedded into a heterogeneous environment, where a multitude of possible reaction pathways may exist. In these cases, only the sampling of an ensemble of dynamic reactive trajectories (transition path sampling, TPS) with explicit models of the environment may reveal the nature of the processes involved. In the present work we show how a TPS approach can conveniently be implemented for the phenomenon of relaxation–isomerization of azobenzenes starting with the simple examples of pure azobenzene and a push–pull derivative immersed in a polar (DMSO) and apolar (toluene) solvent. The latter are represented explicitly at a molecular mechanical (MM) and the azo moiety at a quantum mechanical (QM) level. We demonstrate for the push–pull azobenzene that path sampling in combination with the chosen QM/MM scheme produces the expected change in isomerization pathway from inversion to rotation in going from a low to a high permittivity (explicit) solvent model. We discuss the potential of the simulation procedure presented for comparative calculation of reaction rates and an improved understanding of activated states. Y1 - 2018 U6 - https://doi.org/10.1021/acs.jctc.7b01120 SN - 1549-9618 SN - 1549-9626 VL - 14 IS - 4 SP - 2042 EP - 2051 PB - American Chemical Society CY - Washington ER - TY - JOUR A1 - Xiong, Tao A1 - Włodarczyk, Radosław Stanisław A1 - Gallandi, Lukas A1 - Körzdörfer, Thomas A1 - Saalfrank, Peter T1 - Vibrationally resolved photoelectron spectra of lower diamondoids BT - a time-dependent approach JF - The journal of chemical physics : bridges a gap between journals of physics and journals of chemistry N2 - Vibrationally resolved lowest-energy bands of the photoelectron spectra (PES) of adamantane, diamantane, and urotropine were simulated by a time-dependent correlation function approach within the harmonic approximation. Geometries and normal modes for neutral and cationic molecules were obtained from B3LYP hybrid density functional theory (DFT). It is shown that the simulated spectra reproduce the experimentally observed vibrational finestructure (or its absence) quite well. Origins of the finestructure are discussed and related to recurrences of autocorrelation functions and dominant vibrations. Remaining quantitative and qualitative errors of the DFT-derived PES spectra refer to (i) an overall redshift by ∼0.5 eV and (ii) the absence of satellites in the high-energy region of the spectra. The former error is shown to be due to the neglect of many-body corrections to ordinary Kohn-Sham methods, while the latter has been argued to be due to electron-nuclear couplings beyond the Born-Oppenheimer approximation [Gali et al., Nat. Commun. 7, 11327 (2016)]. Y1 - 2018 U6 - https://doi.org/10.1063/1.5012131 SN - 0021-9606 SN - 1089-7690 VL - 148 IS - 4 PB - American Institute of Physics CY - Melville ER - TY - JOUR A1 - Schulz, Eike C. A1 - Mehrabi, Pedram A1 - Müller-Werkmeister, Henrike A1 - Tellkamp, Friedjof A1 - Jha, Ajay A1 - Stuart, William A1 - Persch, Elke A1 - De Gasparo, Raoul A1 - Diederich, François A1 - Pai, Emil F. A1 - Miller, R. J. Dwayne T1 - The hit-and-return system enables efficient time-resolved serial synchrotron crystallography JF - Nature methods : techniques for life scientists and chemists N2 - We present a ‘hit-and-return’ (HARE) method for time-resolved serial synchrotron crystallography with time resolution from milliseconds to seconds or longer. Timing delays are set mechanically, using the regular pattern in fixed-target crystallography chips and a translation stage system. Optical pump-probe experiments to capture intermediate structures of fluoroacetate dehalogenase binding to its ligand demonstrated that data can be collected at short (30 ms), medium (752 ms) and long (2,052 ms) intervals. KW - Biophysical chemistry KW - Enzymes KW - Molecular biophysics KW - X-ray crystallography Y1 - 2018 U6 - https://doi.org/10.1038/s41592-018-0180-2 SN - 1548-7091 SN - 1548-7105 VL - 15 IS - 11 SP - 901 EP - 904 PB - Nature Publishing Group (London) CY - London ER - TY - GEN A1 - Mehrabi, Pedram A1 - Schulz, Eike A1 - Müller-Werkmeister, Henrike A1 - Persch, Elke A1 - De Gasparo, Raoul A1 - Diederich, Francois A1 - Tellkamp, Friedjof A1 - Pai, Emil F. A1 - Miller, R. J. Dwayne T1 - Time-resolved crystallography via an interlacing approach allows elucidation of milliseconds to seconds time delays T2 - Acta Crystallographica Section A KW - Time-resolved crystallography KW - crystallography KW - enzymology KW - method development Y1 - 2018 U6 - https://doi.org/10.1107/S205327331809321X SN - 2053-2733 VL - 74 SP - E138 EP - E138 PB - International Union of Crystallography CY - Chester ER - TY - THES A1 - Tröger-Müller, Steffen T1 - Truly sustainable imidazolium ionics BT - towards expanding applicability in next-generation batteries Y1 - 2018 ER - TY - THES A1 - Werner, Peter T1 - Untersuchung stark-streuender Polymersuspensionen mittels optischer Methoden Y1 - 2018 ER - TY - JOUR A1 - Hoang, Hoa T. A1 - Mertens, Monique A1 - Wessig, Pablo A1 - Sellrie, Frank A1 - Schenk, Jörg A. A1 - Kumke, Michael Uwe T1 - Antibody Binding at the Liposome-Water Interface BT - a FRET Investigation toward a Liposome-Based Assay JF - ACS Omega N2 - Different signal amplification strategies to improve the detection sensitivity of immunoassays have been applied which utilize enzymatic reactions, nanomaterials, or liposomes. The latter are very attractive materials for signal amplification because liposomes can be loaded with a large amount of signaling molecules, leading to a high sensitivity. In addition, liposomes can be used as a cell-like "bioscaffold" to directly test recognition schemes aiming at cell-related processes. This study demonstrates an easy and fast approach to link the novel hydrophobic optical probe based on [1,3]dioxolo[4,5-f]-[1,3]benzodioxole (DBD dye mm239) with tunable optical properties to hydrophilic recognition elements (e.g., antibodies) using liposomes for signal amplification and as carrier of the hydrophobic dye. The fluorescence properties of mm239 (e.g., long fluorescence lifetime, large Stokes shift, high photostability, and high quantum yield), its high hydrophobicity for efficient anchoring in liposomes, and a maleimide bioreactive group were applied in a unique combination to build a concept for the coupling of antibodies or other protein markers to liposomes (coupling to membranes can be envisaged). The concept further allowed us to avoid multiple dye labeling of the antibody. Here, anti-TAMRA-antibody (DC7-Ab) was attached to the liposomes. In proof-of-concept, steady-state as well as time-resolved fluorescence measurements (e.g., fluorescence depolarization) in combination with single molecule detection (fluorescence correlation spectroscopy, FCS) were used to analyze the binding interaction between DC7-Ab and liposomes as well as the binding of the antigen rhodamine 6G (R6G) to the antibody. Here, the Forster resonance energy transfer (FRET) between mm239 and R6G was monitored. In addition to ensemble FRET data, single-molecule FRET (PIE-FRET) experiments using pulsed interleaved excitation were used to characterize in detail the binding on a single-molecule level to avoid averaging out effects. KW - energy-transfer KW - immunoassay KW - complexes KW - probes Y1 - 2018 U6 - https://doi.org/10.1021/acsomega.8b03016 SN - 2470-1343 VL - 3 IS - 12 SP - 18109 EP - 18116 PB - American Chemical Society CY - Washington ER - TY - JOUR A1 - Ertan, Emelie A1 - Savchenko, Viktoriia A1 - Ignatova, Nina A1 - Vaz da Cruz, Vinicius A1 - Couto, Rafael C. A1 - Eckert, Sebastian A1 - Fondell, Mattis A1 - Dantz, Marcus A1 - Kennedy, Brian A1 - Schmitt, Thorsten A1 - Pietzsch, Annette A1 - Föhlisch, Alexander A1 - Odelius, Michael A1 - Kimberg, Victor T1 - Ultrafast dissociation features in RIXS spectra of the water molecule JF - Physical chemistry, chemical physics : a journal of European Chemical Societies N2 - In this combined theoretical and experimental study we report on an analysis of the resonant inelastic X-ray scattering (RIXS) spectra of gas phase water via the lowest dissociative core-excited state |1s−1O4a11〉. We focus on the spectral feature near the dissociation limit of the electronic ground state. We show that the narrow atomic-like peak consists of the overlapping contribution from the RIXS channels back to the ground state and to the first valence excited state |1b−114a11〉 of the molecule. The spectral feature has signatures of ultrafast dissociation (UFD) in the core-excited state, as we show by means of ab initio calculations and time-dependent nuclear wave packet simulations. We show that the electronically elastic RIXS channel gives substantial contribution to the atomic-like resonance due to the strong bond length dependence of the magnitude and orientation of the transition dipole moment. By studying the RIXS for an excitation energy scan over the core-excited state resonance, we can understand and single out the molecular and atomic-like contributions in the decay to the lowest valence-excited state. Our study is complemented by a theoretical discussion of RIXS in the case of isotopically substituted water (HDO and D2O) where the nuclear dynamics is significantly affected by the heavier fragments' mass. Y1 - 2018 U6 - https://doi.org/10.1039/c8cp01807c SN - 1463-9076 SN - 1463-9084 VL - 20 IS - 21 SP - 14384 EP - 14397 PB - Royal Society of Chemistry CY - Cambridge ER -