Ab-initio Implementation of Ground and Excited State Resonance Raman Spectroscopy


Book Description

We discuss the development and application of multiple methodologies which will either make the traditional electronic structure methods more efficient or reveal the structural insight of condensed or gas-phase systems. The main idea revolves around the development and application of \textit{ab initio} resonance-Raman (RR) spectroscopy and how to achieve the efficiency to simulate the resonance-Raman spectra for biomolecules. To tackle this, the first step was the development of new quadrature grids for high precision integration of modern density functionals, as the choice of density functional for RR simulation stems from the former's accuracy and cost-effectiveness. Our pruned integration grids, SG-2 and SG-3 work well for modern difficult-to-integrate functionals alongside finding a balance between accuracy and computational cost. To calculate the vibrational spectra for a biomolecule, getting the optimized structure is important as normal mode analysis can be erroneous at a non-stationary point. All quantum-mechanical optimization of enzyme active sites can be tricky geometric constraints that need to be introduced to prevent the structural collapse of the model system during geometry optimizations that do not contain a full protein backbone. We introduce a simple alternative in which terminal atoms of the model system are placed in soft harmonic confining potentials rather than being rigidly constrained. The new approach is more efficient for optimizing minima and transition states, as compared to the use of fixed-atom constraints, and also more robust against unwanted imaginary frequencies. To calculate the RR intensities using all-electron quantum chemistry, we used the excited state gradient method under the independent mode displaced harmonic oscillator (IMDHO) approximation. Using the RR spectroscopy we get insightful information about the structure of the hydrated electron, which caused a decade long debate. Furthermore, we have integrated the \textit{ab-initio} molecular dynamics (AIMD) simulation of excited states along with the resonance Raman calculation to substantiate the experimental femtosecond stimulated Raman spectra (FSRS) spectra. This formalism helps us to understand the time-dependent evolution of specific vibrational modes.




Quantum Chemistry and Dynamics of Excited States


Book Description

An introduction to the rapidly evolving methodology of electronic excited states For academic researchers, postdocs, graduate and undergraduate students, Quantum Chemistry and Dynamics of Excited States: Methods and Applications reports the most updated and accurate theoretical techniques to treat electronic excited states. From methods to deal with stationary calculations through time-dependent simulations of molecular systems, this book serves as a guide for beginners in the field and knowledge seekers alike. Taking into account the most recent theory developments and representative applications, it also covers the often-overlooked gap between theoretical and computational chemistry. An excellent reference for both researchers and students, Excited States provides essential knowledge on quantum chemistry, an in-depth overview of the latest developments, and theoretical techniques around the properties and nonadiabatic dynamics of chemical systems. Readers will learn: ● Essential theoretical techniques to describe the properties and dynamics of chemical systems ● Electronic Structure methods for stationary calculations ● Methods for electronic excited states from both a quantum chemical and time-dependent point of view ● A breakdown of the most recent developments in the past 30 years For those searching for a better understanding of excited states as they relate to chemistry, biochemistry, industrial chemistry, and beyond, Quantum Chemistry and Dynamics of Excited States provides a solid education in the necessary foundations and important theories of excited states in photochemistry and ultrafast phenomena.




Ab Initio Molecular Dynamics


Book Description

Ab initio molecular dynamics revolutionized the field of realistic computer simulation of complex molecular systems and processes, including chemical reactions, by unifying molecular dynamics and electronic structure theory. This book provides the first coherent presentation of this rapidly growing field, covering a vast range of methods and their applications, from basic theory to advanced methods. This fascinating text for graduate students and researchers contains systematic derivations of various ab initio molecular dynamics techniques to enable readers to understand and assess the merits and drawbacks of commonly used methods. It also discusses the special features of the widely used Car–Parrinello approach, correcting various misconceptions currently found in research literature. The book contains pseudo-code and program layout for typical plane wave electronic structure codes, allowing newcomers to the field to understand commonly used program packages and enabling developers to improve and add new features in their code.










Radiation Induced Molecular Phenomena in Nucleic Acids


Book Description

Comprehensive theoretical and experimental analysis of UV-radiation and low energy electron induced phenomena in nucleic acid bases (NABs) and base assemblies are presented in this book. NABs are highly photostable; the absorbed energy is dissipated in the form of ultrafast nonradiative decay. This book highlights the possible mechanisms of these phenomena which is important for all living species and discusses technical challenges in exploration of these processes.







Spectroscopic Parameters for Ozone from Infrared and Ultraviolet Techniques


Book Description

The spectral contribution of ozone in the upper atmosphere is a function of the vibrational levels populated in the formation reaction and the time-dependent behavior of those levels. A qualitative analysis of the spectroscopic and Einstein coefficients behavior based on infrared and ultraviolet techniques is presented.




Nanosecond Time-Resolved Resonance Raman and AB Initio Studies of Triplet States and Radical Cations of Halobiphenyls and the Radical Cations of Phenothiazine, Promazine, and Chloropromazine


Book Description

This dissertation, "Nanosecond Time-resolved Resonance Raman and Ab Initio Studies of Triplet States and Radical Cations of Halobiphenyls and the Radical Cations of Phenothiazine, Promazine, and Chloropromazine" by 潘多海, Duohai, Pan, was obtained from The University of Hong Kong (Pokfulam, Hong Kong) and is being sold pursuant to Creative Commons: Attribution 3.0 Hong Kong License. The content of this dissertation has not been altered in any way. We have altered the formatting in order to facilitate the ease of printing and reading of the dissertation. All rights not granted by the above license are retained by the author. DOI: 10.5353/th_b3124086 Subjects: Polychlorinated biphenyls Phenothiazine Raman spectroscopy Photochemistry




Stimulated Raman Spectroscopy Characterization of Wavepackets in Solids and on Rapidly Evolving Potential Energy Surfaces


Book Description

The aim of this dissertation is to describe how Raman spectroscopies can be used to track photoinitiated reactivity. Spectroscopy is the primary tool that allows us to measure the states of matter to understand how they interact. We can then use this understanding to build and innovate systems that fulfill human needs. There is a paradox that studying systems that yield the most fundamental understanding (i.e. gas phase low temperature spectroscopy) are often farthest removed from useful applications (e.g. solar panels, transistors etc.). This work explores both practical and fundamental research where the more fundamental results are presented in the early chapters and more application based results appear in later chapters. In short, we have developed a powerful spectroscopic technique, two-dimensional excited state femtosecond stimulated Raman spectroscopy (2D-ES-FSRS). By pushing FSRS to higher time resolution we can measure couplings between Raman active vibrations that were previously undetectable. Despite our experimental capability, the theoretical interpretation of the signal remains a challenge. Chapter 1 succinctly summarizes spectroscopic signals with focus on vibronic absorption, resonance Raman spectroscopy, and stimulated Raman. Chapter 2 presents an analysis of the two-dimensional excited state femtosecond stimulated Raman spectrum of the charge transfer complex H4-TCNQ:1,2,4,5-tetramethylbenzene. These initial results were interpreted in the context of excited state anharmonicity between low and high frequency Raman vibrations. Chapter 3 presents the high time resolution transient absorption and FSRS analysis of another charge transfer complex tetracyanoethylene:1-chloronapthalene and provides theoretical and experimental evidence for the prevalence of the difference bands in resonant FSRS of small symmetric chromophores. Chapter 4 presents a reevaluation of the analysis of H4-TCNQ:1,2,4,5-tetramethylbenzene from chapter two. Additional excited state data are presented on the fluorinated analogue of H4-TCNQ to confirm vibration reassignments. A formula for the fifth-order 2D-ES-FSRS polarization is derived. We then apply vibronic analysis to systems with more useful applications. Chapter 5 investigates the resonance Raman intensities and vibronic properties of the promising singlet fission sensitizing material, crystalline tetracene. The reorganization energy is diminished in the crystalline system relative to the monomer by a factor of seven indicating that the exciton is delocalized onto about seven tetracene molecules. In Chapter 6 examples of the reciprocal relation between polaron binding energy and polaron size are discussed. In Chapter 7 transient absorption spectroscopy is used to help deduce the molecular mechanism of photocatalysis of an allylic 1,3-photorearrangement of 1-cinnamylalkylammonium ions by a super molecular assembly. The main points of this dissertation can be summarized as follows: •In efficient optical photochemical reactions in the condensed phase low frequency vibrational coherences and the multimode phase relations thereof often determine the branching ratio between reaction pathways. •A resonance Raman spectrum projects the action of the lowest order derivative of the resonant excited state potential energy surface(s) at the ground state geometry onto the ground state vibrational coordinates. Through clever use of resonance conditions these projections allow us to determine the coordinates of proximate conical intersections, those that are reached first by the excited state Raman wavepacket. •The amount of energy that is deposited into vibrational reorganization energy immediately after excitation scales as the reciprocal of the exciton delocalization. The exciton size and therefore the polaron size can sometimes be estimated by a comparison of the magnitude of the Stokes shift. • The time resolution of the amplitudes observed in a femtosecond stimulated Raman spectrum is the cross correlation of the actinic pump and probe pulses and in principal can be sub-10 fs. The time resolution of a frequency observed in a stimulated Raman spectrum is convolved over the duration of the Raman pump pulse or the vibrational dephasing time where the shorter of the two is effectively limiting. •A fifth-order 2D-FSRS signal can be resonantly enhanced relative to a cascading third-order FSRS signal if the last four transient dipole-field interactions are many times more intense than the first two. This is observed when an impulsive pump pulse is resonant with a weak ground state absorption while the Raman pump and Stokes probe pulses are resonant with an intense excited state absorption.