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Understanding Sulfur Based Redox Biology Through Advancements in Chemical Biology

Understanding Sulfur Based Redox Biology Through Advancements in Chemical Biology
Author: Thomas Poole
Publisher:
Total Pages: 154
Release: 2017
Genre:
ISBN:

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Sulfenic acids are fleeting intermediates formed from the oxidation of cysteine thiols by a number of biologically relevant oxidants. Sulfenic acids are quickly converted to other species including disulfides, thiosulfinates, sulfinic acids, or sulfonic acids, leading to changes in protein function. The resulting structural and functional changes can modulate enzyme activity, activate transcription factors, and lead to signaling cascades. Understanding the intricacies of sulfenic acid signaling is important for understanding healthy cellular function and disease states. Identifying the site, timing, and conditions of protein sulfenic acid formation is crucial to understanding cellular redox regulation. The transient nature of sulfenic acids necessitates study with bioorthogonal traps. Current methods for trapping and analyzing sulfenic acids involve the use of dimedone and other nucleophilic 1, 3-dicarbonyl probes that form covalent adducts with cysteinederived protein sulfenic acids. As a mechanistic alternative, we have evaluated highly strained bicyclo[6.1.0]nonyne (BCN) derivatives as concerted traps of sulfenic acids. These strained cycloalkynes react efficiently with sulfenic acids in proteins and small molecules yielding stable alkenyl sulfoxide products at rates more than 100x greater than 1, 3-dicarbonyl reagents enabling kinetic competition with physiological sulfur chemistry. We have demonstrated the selectivity of BCN based probes for sulfenic acids by protein lysate and small molecule experiments. Our experiments show no reactivity with thiols, S-nitrosothiols, sulfinic acids, and sulfonic acids. In contrast, recent literature indicates that BCN and strained alkynes are prone to reacting with thiols under radical conditions via "thiol-yne" reactions, and with persulfides via a mechanism similar to the reaction of alkynes with sulfenic acids. However, it is not completely clear to what extent thiol-yne and persulfide trapping reactions occur under biological conditions. In support of the selectivity of strained alkynes, they are widely used as bioorthogonal reagents in copper free click chemistry. Indeed, the enhanced rates and predictable reactivity of strained alkyne probes make them valuable tools for evaluating transient sulfenic acids in complex cellular environments We have employed computations to identify alternative strained alkynes which should react quickly and more selectively than BCN. Density functionals and hybrid density functionals have been employed with a range of basis sets. We calibrated the computational results with experimental results from three synthesized and two commercially available strained alkynes. The B3LYP-6-31G(2d) theory correlated best with experimental data and was used to assess barrier heights between sulfenic acids and hypothetical alkynes. Computational experiments identified cyclooctynes with endocyclic propargylic heteroatoms as the most viable sulfenic acid traps. Synthesis of a number of choice heterocyclic alkyne candidates was attempted. The enhanced rates demonstrated by current alkynes identify them as new bioorthogonal probes that should facilitate the discovery of previously unknown sulfenic acid sites and their parent proteins. The synthesis and computations described in this work should prove valuable to continued research in this area.


The Chemical Biology of Sulfur

The Chemical Biology of Sulfur
Author: Christopher T Walsh
Publisher: Royal Society of Chemistry
Total Pages: 430
Release: 2020-06-17
Genre: Science
ISBN: 1839161442

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This volume aims to provide an in-depth view of the complete biochemistry of sulfur with an emphasis on aspects not covered elsewhere. Given its role in the formation of proteins and presence in the amino acids methionine and cysteine, sulfur is essential to life. Current literature on the biochemistry of sulfur is vast and widely dispersed, as such this volume is intended as a single-source for everything concerning sulfur biochemistry from metabolic roles of inorganic sulfur, to thiol and thioether chemical biology, to the university of cysteine chemistry in proteomes. Authored by a renowned biochemist and experienced writer and educator, this book is ideal for students and researchers in biochemistry, biology and the life sciences with an interest in sulfur and its role in life.


Redox Biochemistry

Redox Biochemistry
Author: Ruma Banerjee
Publisher: John Wiley & Sons
Total Pages: 350
Release: 2007-12-04
Genre: Science
ISBN: 9780470177327

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This is the premier, single-source reference on redox biochemistry, a rapidly emerging field. This reference presents the basic principles and includes detailed chapters focusing on various aspects of five primary areas of redox biochemistry: antioxidant molecules and redox cofactors; antioxidant enzymes; redox regulation of physiological processes; pathological processes related to redox; and specialized methods. This is a go-to resource for professionals in pharmaceuticals, medicine, immunology, nutrition, and environmental fields and an excellent text for upper-level students.


Hydrogen Sulfide in Redox Biology Part A

Hydrogen Sulfide in Redox Biology Part A
Author:
Publisher: Academic Press
Total Pages: 351
Release: 2015-02-25
Genre: Science
ISBN: 012801623X

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These new volumes of Methods in Enzymology (554 and 555) on Hydrogen Sulfide Signaling continue the legacy established by previous volumes on another gasotransmitter, nitric oxide (Methods in Enzymology volumes 359, 396, 440, and 441), with quality chapters authored by leaders in the field of hydrogen sulfide research. These volumes of Methods in Enzymology were designed as a compendium for hydrogen sulfide detection methods, the pharmacological activity of hydrogen sulfide donors, the redox biochemistry of hydrogen sulfide and its metabolism in mammalian tissues, the mechanisms inherent in hydrogen sulfide cell signaling and transcriptional pathways, and cell signaling in specific systems, such as cardiovascular and nervous system as well as its function in inflammatory responses. Two chapters are also devoted to hydrogen sulfide in plants and a newcomer, molecular hydrogen, its function as a novel antioxidant. Continues the legacy of this premier serial with quality chapters on hydrogen sulfide research authored by leaders in the field Covers conventional and new hydrogen sulfide detection methods Covers the pharmacological activity of hydrogen sulfide donors Contains chapters on important topics on hydrogen sulfide modulation of cell signaling and transcriptional pathways, and the the role of hydrogen sulfide in the cardiovascular and nervous systems and in inflammation


Recent Advances in Redox Active Plant and Microbial Products

Recent Advances in Redox Active Plant and Microbial Products
Author: Claus Jacob
Publisher: Springer
Total Pages: 476
Release: 2014-11-25
Genre: Medical
ISBN: 9401789533

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Nature endows us with a treasure chest of Green Gold full of amazing ‘redox-active’ substances which interfere with numerous biological processes in our own body, in animals, bacteria, fungi and plants. Whilst such natural products are all around and also in us, we still do not fully understand how these compounds actually work. This book attempts to resolve some of the mysteries and riddles associated with such products. Written by more than thirty international experts from academia and industry, it places a focus on modern developments in this field and considers such natural products from various angles, from their isolation and characterization all along to product development and commercialization. Throughout, the reader will be confronted with modern approaches which enable the efficient identification and isolation of new natural products, help to elucidate their mode(s) of action and permit practical uses in Medicine, Cosmetics, Agriculture, Industry and as functional foods.


Iron-Sulfur Clusters in Chemistry and Biology

Iron-Sulfur Clusters in Chemistry and Biology
Author: Tracey Rouault
Publisher: Walter de Gruyter GmbH & Co KG
Total Pages: 672
Release: 2014-08-20
Genre: Science
ISBN: 3110308428

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This volume on iron-sulfur proteins includes chapters that describe the initial discovery of iron-sulfur proteins in the 1960s to elucidation of the roles of iron sulfur clusters as prosthetic groups of enzymes, such as the citric acid cycle enzyme, aconitase, and numerous other proteins, ranging from nitrogenase to DNA repair proteins. The capacity of iron sulfur clusters to accept and delocalize single electrons is explained by basic chemical principles, which illustrate why iron sulfur proteins are uniquely suitable for electron transport and other activities. Techniques used for detection and stabilization of iron-sulfur clusters, including EPR and Mossbauer spectroscopies, are discussed because they are important for characterizing unrecognized and elusive iron sulfur proteins. Recent insights into how nitrogenase works have arisen from multiple advances, described here, including studies of high-resolution crystal structures. Numerous chapters discuss how microbes, plants, and animals synthesize these complex prosthetic groups, and why it is important to understand the chemistry and biogenesis of iron sulfur proteins. In addition to their vital importance in mitochondrial respiration, numerous iron sulfur proteins are important in maintenance of DNA integrity. Multiple rare human diseases with different clinical presentations are caused by mutations of genes in the iron sulfur cluster biogenesis pathway. Understanding iron sulfur proteins is important for understanding a rapidly expanding group of metabolic pathways important in all kingdoms of life, and for understanding processes ranging from nitrogen fixation to human disease.


Insights Into the Chemical Biology of Reactive Sulfur Species Provided by New Investigative Tools

Insights Into the Chemical Biology of Reactive Sulfur Species Provided by New Investigative Tools
Author: Santiago I. Suarez
Publisher:
Total Pages: 0
Release: 2022
Genre:
ISBN:

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Two decades of research on the signaling capacity of hydrogen sulfide (H2S) in biological systems has led to parallel investigations of other reactive sulfur species (RSS) such as persulfides (RSSH) and polysulfides (RSS[subscript n]R, n>1). The purpose of this dissertation was to develop and assess new investigative tools that selectively detect or effectively deliver RSS under biologically relevant conditions. These chemical tools are of significant interest to the redox and molecular signaling communities and can be used to further define the prevalence, signaling capacity, and therapeutic effects of RSS, representing a significant advancement within the field. In chapter II, we describe the design, synthesis, and examination of an innovative, reaction-based fluorescent probe that exploits the double nucleophilic character of H2S by undergoing an intramolecular cyclization to release a fluorescent reporter. Specifically, we employed a highly unique selenosulfide moiety as a trigger for H2S detection. Given the distinct chemical differences between selenium and sulfur, we reasoned that the selenium half would provide access to chemical probes with high reactivity towards and selectively for H2S. Meanwhile, a suitable handle for improving the physicochemical properties of the probe, including its water solubility, cell permeability, and tissue specificity, could be supplied by the sulfide half. Using this novel design strategy, we successfully produced and assessed two H2S-selective probes: AL1, which displayed good water solubility, cell permeability, and overall biocompatibility, and AL2, which displayed cancer cell specificity. Concomitant to detection, chapter III discusses the synthesis and application of a self-reporting donor (ZL47), sensitive to reactive oxygen species (ROS). To accomplish this, we appended an aryl boronate ester to 7-hydroxycoumarin via an S-alkyl thiocarbonate linker allowing for the simultaneous release of COS, an H2S precursor, and a fluorescent reporter in response to hydrogen peroxide. In addition, we determined that ZL47 was a useful bifunctional tool with an ability to both image and alleviate oxidative stress in live cells, highlighting its potential as a theranostic. Chapter IV describes a novel ROS-activated persulfide donor (RAH393) that operates through a unique mechanistic pathway that avoids the production of a 1,4-quinone methide as a toxic byproduct, a major setback for ZL47 and related donors that employ a 1,6-elimination. In addition to confirming that its lactone byproduct was nontoxic, we were able to demonstrate the impressive cellular protection provided by RAH393 against high concentrations of ROS in live HeLa cells. Because this donor proved to be a valuable tool for generating persulfides in response to ROS, in chapter V, we investigated the therapeutic effects of an analogue that targets mitochondria (Mito-PD), the primary producers of ROS and a known site of RSS oxidation. To accomplish this, the mixed disulfide of RAH393 was modified and equipped with a lipophilic cation to facilitate mitochondrion uptake. Using confocal laser microscopy, we confirmed Mito-PD’s preferential release of persulfides within mitochondria from co-localization studies using AL1 (an H2S-selctive probe) and Mitotracker Red. In addition, we demonstrated that Mito-PD protects cardiomyoblast cells in culture (H9C2) from doxorubicin (DOX)-induced cardiotoxicity. Subsequent studies with JC-1, a fluorescent probe that reports on mitochondrial membrane potential, indicate that Mito-PD effectively preserves the membrane potential of DOX treated cells, increasing their viability. These initial studies highlight the therapeutic benefits of mitochondria-targeting RSS donors and their potential for mitigating DOX-induced cardiotoxicity.


Redox-Active Therapeutics

Redox-Active Therapeutics
Author: Ines Batinić-Haberle
Publisher: Springer
Total Pages: 709
Release: 2016-10-13
Genre: Science
ISBN: 3319307053

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This essential volume comprehensively discusses redox-active therapeutics, focusing particularly on their molecular design, mechanistic, pharmacological and medicinal aspects. The first section of the book describes the basic aspects of the chemistry and biology of redox-active drugs and includes a brief overview of the redox-based pathways involved in cancer and the medical aspects of redox-active drugs, assuming little in the way of prior knowledge. Subsequent sections and chapters describe more specialized aspects of central nervous system injuries, neurodegenerative diseases, pain, radiation injury and radioprotection (such as of brain, lungs, head and neck and erectile function) and neglected diseases (e.g., leishmaniasis). It encompasses several major classes of redox-active experimental therapeutics, which include porphyrins, salens, nitrones, and most notably metal-containing (e.g., Mn, Fe, Cu, Zn, Sb) drugs as either single compounds or formulations with nanomaterials and quantum dots. Numerous illustrations, tables and figures enhance and complement the text; extensive references to relevant literature are also included. Redox-Active Therapeutics is an invaluable addition to Springer’s Oxidative Stress in Applied Basic Research and Clinical Practice series. It is essential reading for researchers, clinicians and graduate students interested in understanding and exploring the Redoxome—the organism redox network—as an emerging frontier in drug design, redox biology and medicine.


Redox Signaling and Regulation in Biology and Medicine

Redox Signaling and Regulation in Biology and Medicine
Author: Claus Jacob
Publisher: John Wiley & Sons
Total Pages: 514
Release: 2009-05-06
Genre: Science
ISBN: 3527627596

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This first entry-level guide to the multifaceted field takes readers one step further than existing textbooks. In an easily accessible manner, the authors integrate the biochemistry, cell biology and medical implications of intracellular redox processes, demonstrating that complex science can be presented in a clear and almost entertaining way. Perfect for students and junior researchers, this is an equally valuable addition to courses in biochemistry, molecular biology, cell biology, and human physiology.


Advanced Chemical Biology

Advanced Chemical Biology
Author: Howard C. Hang
Publisher: John Wiley & Sons
Total Pages: 806
Release: 2023-02-06
Genre: Science
ISBN: 3527826300

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Advanced Chemical Biology The modern approach to teaching chemical biology Advanced Chemical Biology is organized around the central dogma of life, progressing from genes to proteins and higher-order cellular structures, including core application areas such as imaging, chemical genetics, activity-based protein profiling, and natural product discovery and biosynthesis. Advanced topics and applications in, e. g., microbiology, developmental biology, and neurobiology, are covered in separate sections. Every chapter is homogeneous in style and layout, consisting of a short historical introduction followed by a description of the underlying concepts and a selection of recent examples of how the concept has been turned into practice. The subdivision of the contents into core and supplemental chapters enables a flexible use in teaching, both for a one-semester and a two-semester course. Written by authors and editors coming from the leading scientific institutions that have developed the concepts and technologies for this discipline, Advanced Chemical Biology includes specific information on topics like: DNA function, synthesis and engineering, chemical approaches to genome integrity, and RNA function, synthesis, and probing Chemical approaches to transcription and RNA regulation in vivo, chemical biology of genome engineering, and peptide/protein synthesis and engineering Directed evolution for chemical biology, chemical biology of cellular metabolism, chemical biology of lipids, and protein post-translational modifications Chemical glycobiology, chemical and enzymatic modification of proteins, genetic code expansion, bio-orthogonal chemistry, and cellular imaging With its broad scope and focus on turning concepts into applications, Advanced Chemical Biology is an excellent starting point for anyone entering the field and looking for a guide to the wide range of available methods and strategies that chemical biology has to offer. With a Foreword by Nobel Laureate Carolyn Bertozzi.