Radicals are core reactive species that occur in almost every subfield of chemistry. In particular, solution phase radicals find their way into biochemistry (e.g. vitamin B12), and in polymer chemistry (e.g. radical polymerizations) just to name a few. Yet, given the proliferation of radical chemistry, there are still fundamental aspects of it that are poorly understood. This dissertation probed factors that influence the solvent cage effect. The solvent cage effect is where two radicals are held in close proximity to one another and prevented from easily escaping (to form free radicals) by a cage of solvent molecules. A convenient metric of the solvent cage effect is the radical recombination efficiency (FcP). Typically, FcP correlates with the bulk viscosity of the solution, however, this parameter only produces qualitative assessments. This dissertation outlines a method to quantitatively predict FcP using the microviscosity. This microviscosity dependence holds for non polar, aromatic, polar, and hydrogen-bonding solvents, along with solutions that contain polymers. Microviscosity is a great metric because it addresses an underlying reason for the solvent cage effect, the strength of the cage. Not only does the strength of the solvent cage around the radical pair affect FcP, but so does the identity of the radicals themselves. That is, the strength of the solvent cage is one piece to forming a total predictive model. FcP for the Cp'2Mo2(CO)6 dimer also varies with the wavelength of irradiation. Identifying the mechanism by which this wavelength dependence occurs may also provide another factor to include in an overall model of the solvent cage effect. Also, an attempt at synthesizing an asymmetric molybdenum dimer was performed. This asymmetric dimer would allow the study of solvent caged radical pairs that are different from each other. Predicting the photochemical cage pair recombination efficiency (FcP) is the major topic of this dissertation. However, there is also the collisional cage recombination efficiency (Fcʹ). This is where free radicals come together in what is called a collisional solvent cage pair. A method and values of Fcʹ are detailed later in this dissertation. This dissertation contains previously published and unpublished co-authored material.

G-quadruplex forming human telomere sequence (HTS) DNA, has been widely studied due to the telomere's implied role in biological processes, including cellular ageing and cancer physiology. The goal of these previous efforts has been to characterize the physiologically relevant structures and their stability and dynamics in order to develop therapeutic applications. Unfortunately, understanding the biologically relevant form of the human telomere DNA is complicated by the fact that HTS-derived sequences are highly polymorphic. To further complicate the issue, recent investigations have demonstrated the ability of "cell-like" co-solvents to alter the preferred G-quadruplex fold of HTS DNA. However, the origins of G-quadruplex structure selection, the relative contributions of crowding versus dehydration, and the possible effects of co-solvents on kinetically determined folding pathways remain unresolved. Towards answering these questions, I investigated HTS DNA G-quadruplex in extreme anhydrous and high viscosity conditions utilizing a deep eutectic solvent (DES) consisting of choline chloride and urea. Herein I report that the water-free DES supports an extremely stable parallel stranded structure, consistent with observations that diminished water activity is the main cause of structural transitions to the "parallel-propeller" form. Furthermore, my research shows that the highly viscous nature of the solvent enables significant diffusion based control over HTS g-quadruplex folding rates and topology, fully consistent with Kramers rate theory. To the best of my knowledge, this is the first example of the kinetic exploration of G-quadruplex folding utilizing high friction solvent; the results of which display a decreased intramolecular folding rate of HTS DNA to a never before encountered time scale on the order of days at physiological temperature. Moreover, I have demonstrated that the folding pathway of a G-quadruplex can be altered with increased solvent friction. These discoveries are important because they highlight the need to consider the viscosity when exploring the dynamics of human telomeres specifically drug binding and folding of G-quadruplexes in vivo where cellular viscosity has been reported to be as high as 140cP. Lastly, it appears that tuning solvent viscosity could prove useful to the continued study of G-quadruplex dynamics.

Tyrosine Hydroxylase (TyrH) is a pterin-dependent mononuclear non-heme iron oxygenase. TyrH catalyzes the hydroxylation reaction of tyrosine to dihydroxyphenylalanine (DOPA). This reaction is the first and the rate-limiting step in the biosynthesis of the catecholamine neurotransmitters. The active site iron in TyrH is coordinated by the common facial triad motif, 2-His-1-Glu. A combination of kinetic and spectroscopic techniques was applied in order to obtain insight into the catalytic mechanism of this physiologically important enzyme. Analysis of the TyrH reaction by rapid freeze-quench Mossbauer spectroscopy allowed the first direct characterization of an Fe(IV) intermediate in a mononuclear nonheme enzyme catalyzing aromatic hydroxylation. Further rapid kinetic studies established the kinetic competency of this intermediate to be the long-postulated hydroxylating species, Fe(IV)O. Spectroscopic investigations of wild-type (WT) and mutant TyrH complexes using magnetic circular dichroism (MCD) and X-ray absorption spectroscopy (XAS) showed that the active site iron is 6-coordinate in the resting form of the enzyme and that binding of either tyrosine or 6MPH4 alone does not change the coordination. However, when both tyrosine and 6MPH4 are bound, the active site becomes 5-coordinate, creating an open site for reaction with O2. Investigation of the kinetics of oxygen reactivity of TyrH complexes in the absence and presence of tyrosine and/or 6MPH4 indicated that there is a significant enhancement in reactivity in the 5-coordinate complex in comparison to the 6-coordinate form. Similar investigations with E332A TyrH showed that Glu332 residue plays a role in directing the protonation of the bridged complex that forms prior to the formation of Fe(IV)O. Rapid chemical quench analyses of DOPA formation showed a burst of product formation, suggesting a slow product release step. Steady-state viscosity experiments established a diffusional step as being significantly rate-limiting. Further studies with stopped-flow spectroscopy indicated that the rate of TyrH reaction is determined by a combination of a number of physical and chemical steps. Investigation of the NO complexes of TyrH by means of optical absorption, electron paramagnetic resonance (EPR) and electron spin echo envelope modulation (ESEEM) techniques revealed the relative positions of the substrate and cofactor with respect to NO, an O2 mimic, and provided further insight into how the active site is tuned for catalytic reactivity upon substrate and cofactor binding.