The presence of thiols in living systems is critical for the maintenance of cellular redox homeostasis, the maintenance of protein thiol-disulfide ratios and the protection of cells from reactive oxygen species. In addition to the well studied tripeptide glutathione (??-Glu-Cys-Gly), a number of compounds have been identified that contribute to these essential cellular roles. Many of these molecules are of great clinical interest due to their essential role in the biochemistry of a number of deadly pathogens, as well as their possible role as therapeutic agents in the treatment of a number of diseases. A series of studies were undertaken using theoretical, chemical and biochemical approaches on a selection of thiols, ergothioneine, the ovothiols and mycothiol, to further our understanding of these necessary biological components. Ergothioneine is present at significant physiological levels in humans and other mammals; however, a definitive role for this thiol has yet to be determined. It has been implicated in radical scavenging in vivo and shows promise as a therapeutic agent against disease states caused by oxidative damage. Given the clinical importance of this intracellular thiol, further investigation into the behaviour of ergothioneine appeared warranted. A high level theoretical study was performed to determine the thermodynamic driving force behind the instability of the ergothioneine disulfide, as well as the thermodynamics of the reactions of ergothioneine with a selection of biologically relevant reactive oxygen species. These results were compared to those determined for a glutathione model compound, as well as the related ovothiols. The latter are believed to act as hydrogen peroxide scavengers in vivo and are currently under review as possible therapeutics against oxidative damage. The structural differences between the ovothiols and ergothioneine dramatically affect their reactivity and this study investigates the thermodynamic driving forces behind these differences. Mycothiol is the major thiol found in the Actinomycetales bacteria, which include the causative agent of tuberculosis, and the enzymes which use mycothiol have been identified as important targets for the development of novel antimicrobials. To better understand the in vivo behaviour of mycothiol, a thorough conformational search was performed to determine what, if any, trends exist among the low energy conformers expected to be present in solution. Knowledge of the conformations preferred by mycothiol may aid in the design of substrate-based inhibitors targeted at mycothiol-dependent enzymes. In addition, the efforts towards the identification of a mycothiol-dependent glyoxalase system are described. The glyoxalase system is essential for the detoxification of methylglyoxal, a toxic by-product of glycolysis, and this system would serve as a target for the design of new therapeutics against tuberculosis and other pathogenic Actinomycetales bacteria. In addition to the study of intracellular thiols, this work details a preliminary theoretical study of the thermodynamics of the phosphorylation of proteinaceous serine residues by inositol pyrophosphates in eukaryotic cell-free extracts. It has been postulated that this observed activity may represent a novel signalling pathway in eukaryotes. This study focused on the effect of inositol pyrophosphate structure and overall charge on the thermodynamics of these reactions. This information should contribute to our understanding of this novel cellular phosphorylation process.

Ergothioneine, a histidine-derived thiol, protects cells against reactive oxygen species and is emerging as a longevity vitamin. Ovothiol, another histidine-derived thiol, is also a potent antioxidant with therapeutic potential due to its anti-inflammatory and anti-proliferative activities. Despite these promising health benefits, the production of ergothioneine is limited by the underlying challenges of its only industrial synthetic method, while ovothiol is not commercially available. Due to these issues, the production of these thiols through metabolic engineering/synthetic biology approaches is appealing. The central steps in the ergothioneine and ovothiol biosynthetic pathways are the oxidative coupling C-S bond formation reaction mediated by non-heme iron sulfoxide synthases, and the pyridoxal-5'-phosphate (PLP)-dependent C-S lyases. This sulfur transfer strategy differs from all other pathways reported. Therefore, these trans-sulfuration reactions in ergothioneine and ovothiol biosyntheses are significant from both basic and translational research perspectives, hence, they were selected as my thesis project. This thesis comprises of five chapters. Sulfur metabolism and the biosynthesis of sulfur-containing natural products are presented in Chapter 1. The computational-guided protein engineering of a thermophilic sulfoxide synthase (EgtB) from Chloracidobacterium thermophiluim is covered in Chapter 2. Chapter 3 describes the mechanistic studies of the reductive C-S lyase (Egt2 from the Neurospora crassa’s ergothioneine biosynthesis), which revealed the involvement of a sulfenic acid intermediate in this reaction. In addition to reconstituting the ergothioneine biosynthetic pathway in vitro presented in Chapter 3, I fully reconstituted the in vitro ovothiol A biosynthetic pathway from Erwinia tasmaniensis, which is described in Chapter 4. In Chapter 5, the mechanistic studies of the ovothiol sulfoxide synthase OvoA using unnatural amino acid incorporation via amber-codon suppression are discussed. The success of this thesis work paves the way for the industrial production of ergothioneine and ovothiol through metabolic engineering/synthetic biology approaches. This study has also laid the foundation for future in-depth mechanistic characterization of these novel enzymes.

Ergothioneine and ovothiol A are naturally occurring thiol-histidine derivatives. Both of them are suggested to be beneficial to human health. Ergothioneine has anti-inflammation and anti-oxidative properties and ovothiol has anti-proliferative activities. Recently, ergothioneine has been suggested to be also linked to lifespan longevity. For these reasons, there is a need to investigate the mechanisms of ergothioneine and ovothiol biosynthesis is appealing. My thesis work has addressed this gap in knowledge, focusing on the mechanistic investigations of two C-S bond formation enzymes: EanB in anaerobic ergothioneine biosynthesis, and OvoA in ovothiol biosynthesis. Chapter 1 provides an overview of sulfur-containing metabolites, including the metabolism, potential biological functions, and biosynthesis of several key sulfur containing natural products. Chapter 2 contains my initial investigations into EanB catalysis, namely the original sulfur source for this enzyme. We demonstrated that the polysulfide (HSSnSR) is the direct sulfur source in EanB catalysis. With the discovery of the unique sulfur source, we then probed how EanB uses polysulfide for catalysis. A few reaction intermediate states were successfully characterized by X-ray crystallography and the proposed reaction mechanisms were further evaluated by QM/MM calculation. In Chapter 3, we evaluated the involvement of a proposed carbene intermediate involved in EanB catalysis by the deuterium exchange experiments with hercynine. In addition, using 3,5-difluoro-tyrosine containing EanB produced through amber suppressor method, we have also kinetically characterize the deuterium-exchange reaction. Chapter 4 reports the biochemical characterization of an OvoA homolog, OvoAMtht, from a mesophilic organism. OvoAMtht has dual activities: sulfoxide synthase and cysteine dioxygenase. In addition, I have demonstrated that both substrates and the active site iron’s secondary coordination shell residues exert exquisite control to OvoAMtht dual activities, which makes OvoAMtht an excellent system for future structure-function relationship studies for this class of enzymes. In summary, my thesis has laid the foundation for future detailed mechanistic investigations of the C-S bond formation reactions in both anaerobic ergothioneine biosynthetic and ovothiol aerobic biosynthetic pathways.

The presence of thiols in living systems is critical for the maintenance of cellular redox homeostasis, the maintenance of protein thiol-disulfide ratios and the protection of cells from reactive oxygen species. In addition to the well studied tripeptide glutathione (γ-Glu-Cys-Gly), a number of compounds have been identified that contribute to these essential cellular roles. Many of these molecules are of great clinical interest due to their essential role in the biochemistry of a number of deadly pathogens, as well as their possible role as therapeutic agents in the treatment of a number of diseases. A series of studies were undertaken using theoretical, chemical and biochemical approaches on a selection of thiols, ergothioneine, the ovothiols and mycothiol, to further our understanding of these necessary biological components. Ergothioneine is present at significant physiological levels in humans and other mammals; however, a definitive role for this thiol has yet to be determined. It has been implicated in radical scavenging in vivo and shows promise as a therapeutic agent against disease states caused by oxidative damage. Given the clinical importance of this intracellular thiol, further investigation into the behaviour of ergothioneine appeared warranted. A high level theoretical study was performed to determine the thermodynamic driving force behind the instability of the ergothioneine disulfide, as well as the thermodynamics of the reactions of ergothioneine with a selection of biologically relevant reactive oxygen species. These results were compared to those determined for a glutathione model compound, as well as the related ovothiols. The latter are believed to act as hydrogen peroxide scavengers in vivo and are currently under review as possible therapeutics against oxidative damage. The structural differences between the ovothiols and ergothioneine dramatically affect their reactivity and this study investigates the thermodynamic driving forces behind these differences. Mycothiol is the major thiol found in the Actinomycetales bacteria, which include the causative agent of tuberculosis, and the enzymes which use mycothiol have been identified as important targets for the development of novel antimicrobials. To better understand the in vivo behaviour of mycothiol, a thorough conformational search was performed to determine what, if any, trends exist among the low energy conformers expected to be present in solution. Knowledge of the conformations preferred by mycothiol may aid in the design of substrate-based inhibitors targeted at mycothiol-dependent enzymes. In addition, the efforts towards the identification of a mycothiol-dependent glyoxalase system are described. The glyoxalase system is essential for the detoxification of methylglyoxal, a toxic by-product of glycolysis, and this system would serve as a target for the design of new therapeutics against tuberculosis and other pathogenic Actinomycetales bacteria. In addition to the study of intracellular thiols, this work details a preliminary theoretical study of the thermodynamics of the phosphorylation of proteinaceous serine residues by inositol pyrophosphates in eukaryotic cell-free extracts. It has been postulated that this observed activity may represent a novel signalling pathway in eukaryotes. This study focused on the effect of inositol pyrophosphate structure and overall charge on the thermodynamics of these reactions. This information should contribute to our understanding of this novel cellular phosphorylation process.