Biocatalytic Methods for Carbon-nitrogen Bond Formation Via Hemoprotein-catalyzed Group Transfer Reactions

Biocatalytic Methods for Carbon-nitrogen Bond Formation Via Hemoprotein-catalyzed Group Transfer Reactions
Author: Viktoria Steck
Publisher:
Total Pages: 254
Release: 2019
Genre:
ISBN:

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"Our group has recently established that heme-containing proteins, in particular myoglobin and cytochrome P450s, constitute promising biocatalysts for the formation of carbon-nitrogen and carbon-carbon bonds via nitrene and carbene transfer reactions, a class of synthetically valuable transformations not occurring in nature. Building upon this work, a first goal of this research was to improve the scope and efficiency of these nitrene transfer biocatalysts for C-H amination reactions. To this end, we identified a novel, unusual P450-type enzyme named XplA, which catalyzes the intramolecular C-H amination of arylsulfonyl azide substrates with a significant enhancement of activity and chemoselectivity in comparison to other P450s, which efficiency in this reaction is limited by the generation of reduced byproducts. Primary kinetic isotope effect studies revealed that the mechanism proceeds with C-H bond activation as the rate limiting step and provided insights into the competition between productive vs. non-productive nitrene transfer pathways. Furthermore, we discovered that non-heme Rieske dioxygenases are viable C- H amination biocatalysts and explored their potential value in nitrene transfer reactions by means of protein engineering, large scale reactions in a bioreactor, and analysis of their reaction and substrate scope. In a second part, we expanded and modulated the reactivity of myoglobin biocatalysts in carbene transfer reactions. A series of artificial myoglobin-based metalloenzymes containing manganese, iron, cobalt, ruthenium, rhodium and iridium were investigated for cyclopropanation and Y-H (Y = N, S) carbene insertion reactions. Engineered variants containing a ruthenium cofactor were found to be excellent S-Hinsertion catalysts, while variants harboring an iridium cofactor were capable of C-H insertion reactions not supported by the parent protein. Next, we demonstrated how cofactor variation in combination with mutations of the proximal ligand anchoring the metalloporphyrin in the active site pocket drastically influences catalyst chemoselectivity. Specifically, we developed a serine-ligated cobalt-porphyrin variant that favors the more challenging olefin cyclopropanation reaction in the presence of competing functional groups. In contrast, the native protein with a histidine-ligated heme cofactor selectively undergoes the complementary Y-H (Y = N, Si) insertion reaction in the presence of unsaturated bonds. In a further study, we successfully extended the substrate scope of engineered myoglobin 'carbene transferases' for realizing N-H insertion reactions between benzyl- and alkylamines and different diazo precursors, which was previously not reported for other hemoproteins, thereby enabling access to valuable functionalized benzyland alkylamines. Finally, we devised a biocatalytic strategy for the asymmetric synthesis of chiral amines via myoglobin-catalyzed N-H insertion. Achieving high enantioselectivity in carbene-mediated N-H insertion reactions has been notoriously challenging. To this end, reactions involving a combination of evolved myoglobin variants with engineered diazo compounds led to the first report and highest enantioselectivity achieved by a biocatalyst in this reaction to date. In addition, stereodivergent biocatalysts were developed to obtain both mirror-image forms of chiral anilines. Altogether, these studies highlight how protein engineering provides a powerful strategy for expanding the biocatalytic toolbox toward synthetically useful yet challenging abiological biotransformations under environmentally friendly and sustainable conditions"--Pages xi-xii.

Catalytic Methods for Carbon-carbon and Carbon-nitrogen Bond Formation

Catalytic Methods for Carbon-carbon and Carbon-nitrogen Bond Formation
Author: Stephen David Ramgren
Publisher:
Total Pages: 511
Release: 2014
Genre:
ISBN:

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This dissertation describes the study of metal-catalyzed cross-coupling reactions to construct carbon-carbon and carbon-heteroatom bonds. The key feature of much of this work is the use of inexpensive Ni and Fe catalysts to enable the coupling of unconventional electrophilic substrates, specifically aryl O-sulfamates and O-carbamates. The ability to use O-sulfamates and O-carbamates in catalytic processes is notable, as these substrates are readily derived from phenols and can be used for directed arene functionalization. Chapter one provides a summary of the efforts towards using alcohol-based solvents for the Suzuki-Miyaura cross-coupling reaction. Emphasis is placed on the cross-coupling of heterocycles, which are commonly encountered in natural product synthesis and in the pharmaceutical sector. Chapters two, three, and four describe carbon-nitrogen bond forming reactions. Chapter two pertains to the nickel-catalyzed amination of sulfamates, which culminated in the synthesis of the antibacterial drug, linezolid. Chapter three covers the amination of aryl O-carbamates and their use in sequential functionalization/site-selective cross-couplings. Chapter four describes a more user-friendly variant of the amination reaction, which relies on a bench-stable Ni(II) precatalyst, rather than a more commonly used Ni(0) precatalyst. Chapters five, six, and seven focus on carbon-carbon bond formation via Fe-, Ni- and Pd-mediated processes. Chapter five pertains to iron-catalyzed couplings of sulfamates and carbamates to generate sp2-sp3 carbon-carbon bonds. This method can be used to assemble sterically-congested frameworks. Chapter six describes the nickel-catalyzed Suzuki-Miyaura reactions of halides and phenol derivatives in `green' solvents, which was applied to the preparative scale assembly of bis(heterocycles) using low nickel catalyst loadings. Chapter seven pertains to the acetylation of arenes using palladium catalysis, which provides a simple and efficient means for the construction of a variety of aryl methyl ketones.

Practical Methods for Biocatalysis and Biotransformations 3

Practical Methods for Biocatalysis and Biotransformations 3
Author: John Whittall
Publisher: John Wiley & Sons
Total Pages: 316
Release: 2016-04-18
Genre: Technology & Engineering
ISBN: 111860525X

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Biocatalysts are increasingly used by chemists engaged in fine chemical synthesis within both industry and academia. Today, there exists a huge choice of high-tech enzymes and whole cell biocatalysts, which add enormously to the repertoire of synthetic possibilities. Practical Methods for Biocatalysis and Biotransformations 3 will be a companion book to Practical Methods for Biocatalysis and Biotransformations (2009) and Practical Methods for Biocatalysis and Biotransformations 2 (2012). Following the successful format of the two volumes, it will be a “how-to” guide focusing on commercially available enzymes and strains of microorganisms that are readily obtained from culture collections. The source of starting materials and reagents, hints, tips and safety advice (where appropriate) will be given to ensure, as far as possible, that the procedures are reproducible. Comparisons to alternative methodology will be given and relevant references to the primary literature will be cited. Contents include: Biotransformation Process Technology Industrial Biooxidation Hydrolase catalysed hydrolysis/synthesis Reduction Oxidation Halogenation Transferase catalysed glycosylation, methylation, etc C-C bond formation Tandem Biocatalytic Reactions Practical Methods for Biocatalysis and Biotransformations, Volume 3 is an essential collection of validated biocatalytic methods which will find a place on the bookshelves of synthetic organic chemists, pharmaceutical chemists, and process R&D chemists in industry and academia.

Biocatalytic Organofluorine Synthesis Via Hemoprotein-catalyzed Carbene Transfer Reactions

Biocatalytic Organofluorine Synthesis Via Hemoprotein-catalyzed Carbene Transfer Reactions
Author: Antonio Tinoco Valencia
Publisher:
Total Pages: 291
Release: 2020
Genre:
ISBN:

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"Protein engineering efforts in our laboratory led to the development of efficient hemoprotein-based biocatalysts for abiological carbene transfer reactions. These engineered ?carbene transferases' are capable of catalyzing synthetically valuable carboncarbon and carbon-nitrogen bond forming reactions with excellent catalytic efficiencies and stereoselectivities. Expanding on this area, the first goal of this dissertation research was to extend the carbene donor scope onto fluoroalkyl-substituted diazo compounds for the biocatalytic synthesis of valuable organofluorine building blocks. Toward this goal, we developed a biocatalytic protocol for the highly asymmetric and enantiodivergent synthesis of trifluoromethyl-substituted cycloclopropanes via myoglobin catalyzed cyclopropanation of aryl olefins using gaseous 2-diazo-1,1,1-trifluoroethane (DTE) as the carbene donor. The reactions were accomplished by using a two-compartment setup in which ex situ generated gaseous DTE is processed by engineered myoglobin catalysts expressed in bacterial cells. Additionally, we engineered cytochrome c from Hydrogenobacter thermophilus (Ht cyt c) into a biocatalyst capable of promoting enantioselective N-H carbene insertion reactions using acceptor-acceptor substituted alkyl 2-diazo-3,3,3-trifluoropropanoates. The dual synergistic effects of the mutations introduced to the Ht cyt c distal cavity along with the implementation of sterically demanding alkyl substituents on the diazo compound afforded high levels of enantioinduction. This novel C-N bond forming reaction, which has no precedence in chemo- or biocatalysis, affords medicinally valuable chiral a-trifluoromethyl aminoesters. The second part of this dissertation research describes the investigation of the mechanism of olefin cyclopropanation reactions catalyzed by myoglobin-based catalysts. To this extent, the basic mechanism of iron porphyrin- and hemoprotein-catalyzed cyclopropanation of styrene was studied using a combination of quantum chemical calculations and experimental mechanistic analyses. Our findings demonstrate for the first time that the synthetically useful carbon?carbon double bond functionalization reaction catalyzed by heme carbenes feature a ferrous, nonradical, concerted asynchronous mechanism with early transition state character. Furthermore, we focused on elucidating the stereochemical model and structural determinants for high stereoselectivity of the engineered myoglobin variant Mb(H64V,V68A), which catalyzes the cyclopropanation of styrene using ethyl diazoacetate with up to 10,000 TON and >99% de and ee. A combination of structural biology, computational and structure-activity relationship analyses revealed the importance of steric complementarity and weak noncovalent interactions between the first-sphere active site residues, the heme-carbene, and the olefin substrate in dictating the stereochemical outcome of the cyclopropanation reaction. These studies collectively highlight how the engineering and repurposing of metalloproteins is a powerful approach for expanding the arsenal of biocatalytic transformations useful for synthetic applications. Furthermore, these new-to-Nature biocatalytic reactions represent a new and sustainable alternative for the production of optically active building blocks of great interest in drug discovery and development"--Pages xviii-xix.

Advances in Late-Metal Carbon-Nitrogen Bond Formation for the Synthesis of Substituted Heterocycles

Advances in Late-Metal Carbon-Nitrogen Bond Formation for the Synthesis of Substituted Heterocycles
Author: Nicolas Rotta-Loria
Publisher:
Total Pages: 0
Release: 2017
Genre:
ISBN:

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Late-metal catalyzed cross-couplings have emerged as efficient and selective methodologies for the formation of C-C and C-N bonds. The ability to synthesize complex heterocycles from cheap and abundant starting materials is an invaluable asset to the pharmaceutical industry, given that many pharmaceuticals contain at least one heterocyclic component. This reactivity can be achieved by tuning the steric and electronic properties of ancillary ligands to support metal catalysts in the reaction steps leading to the target substrate. The Stradiotto group has developed several state-of-the-art methodologies involving ligands for palladium catalysis, for both C-C and C-N bond-forming reactions. These methodologies can be amalgamated into a multicomponent reaction platform to synthesize more complex products from simple materials. Chapter 1 outlines this concept with the application of a Mor-DalPhos/Pd catalyst in the one-pot synthesis of indoles from acetone and simple amines involving C-C and C-N bond formation. The robust nature of this method can be extended to include benchtop reaction conditions in a one-step, one-pot synthesis of indoles, thus representing a useful synthetic protocol. While palladium provides a powerful tool for C-C and C-N bond formation, the general trend in catalysis has shifted away from the precious metals toward first row metals as economic alternatives. Nickel complexes have recently emerged as excellent catalysts for a number of amination reactions. The ability to utilize ammonia also represents a sought after reaction, due to the widespread availability and synthetic utility of amino-functionalized products. In this regard, Chapter 2 will focus on the development and application of both commercially available and strategically designed ligand classes for the monoarylation of ammonia with substituted heterocycles. Hydrazine represents an important synthon in synthetic chemistry. It is synthesized on multi-ton scale every year and represents an important building block in many industrial processes. Many synthetic challenges arise from using free hydrazine as reactant, which has led to lethargic growth of its application in the field of late-metal catalyzed C-N bond-formation. However, gold-catalyzed methodologies have been developed utilizing NHC ligands to allow for the hydrohydrazination of alkynes with parent hydrazine. Chapter 4 examines the development and application of a series of (PR3)AuCl complexes for use in such transformations, leading to the identification of the first effective phosphine-bound gold complex for use in the hydrohydrazination of alkynes at room temperature.

Directed Evolution of Selective Enzymes

Directed Evolution of Selective Enzymes
Author: Manfred T. Reetz
Publisher: John Wiley & Sons
Total Pages: 320
Release: 2016-12-19
Genre: Science
ISBN: 3527316604

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Authored by one of the world's leading organic chemists, this authoritative reference provides an overview of basic strategies in directed evolution and introduces common gene mutagenesis, screening and selection methods. Throughout the text, emphasis is placed on methodology development to maximize efficiency, reliability and speed of the experiments and to provide guidelines for efficient protein engineering. Professor Reetz highlights the application of directed evolution experiments to address limitations in the field of enzyme selectivity, substrate scope, activity and robustness. He critically reviews recent developments and case studies, takes a look at future applications in the field of organic synthesis, and concludes with lessons learned from previous experiments.

Natural Product Biosynthesis

Natural Product Biosynthesis
Author: Christopher T. Walsh
Publisher: Royal Society of Chemistry
Total Pages: 787
Release: 2017-04-28
Genre: Science
ISBN: 1788010760

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This textbook describes the types of natural products, the biosynthetic pathways that enable the production of these molecules, and an update on the discovery of novel products in the post-genomic era.

Cytochrome P450

Cytochrome P450
Author: Paul R. Ortiz de Montellano
Publisher: Springer Science & Business Media
Total Pages: 702
Release: 2007-02-05
Genre: Medical
ISBN: 0387274472

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Cytochrome P450: Structure, Mechanism, and Biochemistry, third edition is a revision of a review that summarizes the current state of research in the field of drug metabolism. The emphasis is on structure, mechanism, biochemistry, and regulation. Coverage is interdisciplinary, ranging from bioinorganic chemistry of cytochrome P450 to its relevance in human medicine. Each chapter provides an in-depth review of a given topic, but concentrates on advances of the last 10 years.

Biotransformations in Organic Chemistry

Biotransformations in Organic Chemistry
Author: Kurt Faber
Publisher: Springer Science & Business Media
Total Pages: 329
Release: 2012-12-06
Genre: Science
ISBN: 3642974236

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The use of natural catalysts - enzymes - for the transformation of non-natural is not at all new: they have been used for more man-made organic compounds than one hundred years, employed either as whole cells, cell organelles or isolated enzymes [1]. Certainly, the object of most of the early research was totally different from that of the present day. Thus the elucidation of biochemical pathways and enzyme mechanisms was in the foreground of the reasearch some decades ago. It was mainly during the 1980s that the enormous potential of applying natural catalysts to transform non-natural organic compounds was recognized. What started as a trend in the late 1970s could almost be called a fashion in synthetic organic chemistry in the 1990s. Although the early euphoria during the 'gold rush' in this field seems to have eased somewhat, there is still no limit to be seen for the future development of such methods. As a result of this extensive, recent research, there have been an estimated 5000 papers published on the subject [2]. To collate these data as a kind of 'super-review' would clearly be an impossible task and, furthermore, such a hypothetical book would be unpalatable for the non-expert.

2-Oxoglutarate-Dependent Oxygenases

2-Oxoglutarate-Dependent Oxygenases
Author: Christopher J Schofield
Publisher: Royal Society of Chemistry
Total Pages: 508
Release: 2015-05-06
Genre: Science
ISBN: 1849739501

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Since the discovery of the first examples of 2-oxoglutarate-dependent oxygenase-catalysed reactions in the 1960s, a remarkably broad diversity of alternate reactions and substrates has been revealed, and extensive advances have been achieved in our understanding of the structures and catalytic mechanisms. These enzymes are important agrochemical targets and are being pursued as therapeutic targets for a wide range of diseases including cancer and anemia. This book provides a central source of information that summarizes the key features of the essential group of 2-oxoglutarate-dependent dioxygenases and related enzymes. Given the numerous recent advances and biomedical interest in the field, this book aims to unite the latest research for those already working in the field as well as to provide an introduction for those newly approaching the topic, and for those interested in translating the basic science into medicinal and agricultural benefits. The book begins with four broad chapters that highlight critical aspects, including an overview of possible catalytic reactions, structures and mechanisms. The following seventeen chapters focus on carefully selected topics, each written by leading experts in the area. Readers will find explanations of rapidly evolving research, from the chemistry of isopenicillin N synthase to the oxidation mechanism of 5-methylcytosine in DNA by ten-eleven-translocase oxygenases.