Emerging Synthetic Methods for Routes Towards Molecules of Biological Relevance

Emerging Synthetic Methods for Routes Towards Molecules of Biological Relevance PDF Author: Calum D. Forsyth
Publisher:
ISBN:
Category :
Languages : en
Pages : 862

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Book Description
Investigations into the application of catalysts, of the type [Ir(COD)(PR3)(NHC)]PF6, within the realm of alkyne dimerization have been undertaken. These novel catalysts, previously synthesised within our research group, feature both a bulky phosphine ligand and a sterically-encumbered N-heterocyclic carbene ligand. The use of these iridium complexes in alkyne dimerization has been examined, with particular emphasis being placed upon tuning the selectivity of the dimerization whilst maintaining high yields. The relative paucity of iridium-mediated (Z)-selective dimerization procedures detailed in the literature rendered this transformation an appealing process to investigate. Subsequent studies led to a broadly employable system being developed which was applied to a range of aryl alkynes, resulting in the formation of the analogous (Z)-enynes in good yield. Following this, a programme of research in collaboration with the Beatson Institute for Cancer Research, Glasgow, describes contributions towards the construction of specific '3D libraries' for potential application in fragment-based drug discovery. The chemistry investigated during this time forms the basis of the Beatson's contribution to the recently formed '3D libraries consortium' concerned with the fragment-based drug discovery. The ultimate goal was the preparation of an array of compounds featuring a non-planar conformation. It is hypothesised that the fragments will play key roles in inhibiting protein-protein interactions in key oncological processes. Further, it is envisaged that the conformational complexity imparted to the compounds will provide an advantage in overcoming difficulties associated with protein specificity. The aim of the project was to design a synthetic route to a novel pyridyl cyclopropane scaffold. The goal was that the preparative approach would allow for rapid access to a key late-stage intermediate, which in turn would then be able to undergo a series of transformations to allow for a range of fragments, based around a common scaffold, to be synthesised. The isolated compounds will form the basis of biophysical and biochemical based screening assays examining the compound's anti-cancer profile, with particular focus on identifying inhibitors of proteinprotein interactions. The final section of research centred on efforts towards the total synthesis of Agariblazeispirol C. As a result, significant steps towards the synthesis of the natural product have been achieved and a functionalised advanced intermediate has been reached. In this regard, a robust and efficient preparative pathway to the advanced intermediate has been designed. In addition, the key oxygenated sidechain has been installed in a late-stage species and represents an auspicious step towards the synthesis of the target molecule. The introduction of this key moiety was achieved following sustained synthetic efforts focusing on olefination and organometallic addition chemistry. The stereochemistry of the resulting intermediate has been deduced based on NMR studies. Subsequent synthetic investigations facilitated the formation of a suitable precursor for the ultimate synthetic transformation, a Pauson-Khand reaction. Preliminary attempts to promote the annulation protocol are discussed and it is likely that this work will significantly enhance the likelihood of accessing the natural product for the first time.

Emerging Synthetic Methods for Routes Towards Molecules of Biological Relevance

Emerging Synthetic Methods for Routes Towards Molecules of Biological Relevance PDF Author: Calum D. Forsyth
Publisher:
ISBN:
Category :
Languages : en
Pages : 862

Get Book Here

Book Description
Investigations into the application of catalysts, of the type [Ir(COD)(PR3)(NHC)]PF6, within the realm of alkyne dimerization have been undertaken. These novel catalysts, previously synthesised within our research group, feature both a bulky phosphine ligand and a sterically-encumbered N-heterocyclic carbene ligand. The use of these iridium complexes in alkyne dimerization has been examined, with particular emphasis being placed upon tuning the selectivity of the dimerization whilst maintaining high yields. The relative paucity of iridium-mediated (Z)-selective dimerization procedures detailed in the literature rendered this transformation an appealing process to investigate. Subsequent studies led to a broadly employable system being developed which was applied to a range of aryl alkynes, resulting in the formation of the analogous (Z)-enynes in good yield. Following this, a programme of research in collaboration with the Beatson Institute for Cancer Research, Glasgow, describes contributions towards the construction of specific '3D libraries' for potential application in fragment-based drug discovery. The chemistry investigated during this time forms the basis of the Beatson's contribution to the recently formed '3D libraries consortium' concerned with the fragment-based drug discovery. The ultimate goal was the preparation of an array of compounds featuring a non-planar conformation. It is hypothesised that the fragments will play key roles in inhibiting protein-protein interactions in key oncological processes. Further, it is envisaged that the conformational complexity imparted to the compounds will provide an advantage in overcoming difficulties associated with protein specificity. The aim of the project was to design a synthetic route to a novel pyridyl cyclopropane scaffold. The goal was that the preparative approach would allow for rapid access to a key late-stage intermediate, which in turn would then be able to undergo a series of transformations to allow for a range of fragments, based around a common scaffold, to be synthesised. The isolated compounds will form the basis of biophysical and biochemical based screening assays examining the compound's anti-cancer profile, with particular focus on identifying inhibitors of proteinprotein interactions. The final section of research centred on efforts towards the total synthesis of Agariblazeispirol C. As a result, significant steps towards the synthesis of the natural product have been achieved and a functionalised advanced intermediate has been reached. In this regard, a robust and efficient preparative pathway to the advanced intermediate has been designed. In addition, the key oxygenated sidechain has been installed in a late-stage species and represents an auspicious step towards the synthesis of the target molecule. The introduction of this key moiety was achieved following sustained synthetic efforts focusing on olefination and organometallic addition chemistry. The stereochemistry of the resulting intermediate has been deduced based on NMR studies. Subsequent synthetic investigations facilitated the formation of a suitable precursor for the ultimate synthetic transformation, a Pauson-Khand reaction. Preliminary attempts to promote the annulation protocol are discussed and it is likely that this work will significantly enhance the likelihood of accessing the natural product for the first time.

Molecular Biology of the Cell

Molecular Biology of the Cell PDF Author:
Publisher:
ISBN: 9780815332183
Category : Cells
Languages : en
Pages : 0

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Book Description


Industrialization of Biology

Industrialization of Biology PDF Author: National Research Council
Publisher: National Academies Press
ISBN: 0309316553
Category : Science
Languages : en
Pages : 158

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Book Description
The tremendous progress in biology over the last half century - from Watson and Crick's elucidation of the structure of DNA to today's astonishing, rapid progress in the field of synthetic biology - has positioned us for significant innovation in chemical production. New bio-based chemicals, improved public health through improved drugs and diagnostics, and biofuels that reduce our dependency on oil are all results of research and innovation in the biological sciences. In the past decade, we have witnessed major advances made possible by biotechnology in areas such as rapid, low-cost DNA sequencing, metabolic engineering, and high-throughput screening. The manufacturing of chemicals using biological synthesis and engineering could expand even faster. A proactive strategy - implemented through the development of a technical roadmap similar to those that enabled sustained growth in the semiconductor industry and our explorations of space - is needed if we are to realize the widespread benefits of accelerating the industrialization of biology. Industrialization of Biology presents such a roadmap to achieve key technical milestones for chemical manufacturing through biological routes. This report examines the technical, economic, and societal factors that limit the adoption of bioprocessing in the chemical industry today and which, if surmounted, would markedly accelerate the advanced manufacturing of chemicals via industrial biotechnology. Working at the interface of synthetic chemistry, metabolic engineering, molecular biology, and synthetic biology, Industrialization of Biology identifies key technical goals for next-generation chemical manufacturing, then identifies the gaps in knowledge, tools, techniques, and systems required to meet those goals, and targets and timelines for achieving them. This report also considers the skills necessary to accomplish the roadmap goals, and what training opportunities are required to produce the cadre of skilled scientists and engineers needed.

Beyond the Molecular Frontier

Beyond the Molecular Frontier PDF Author: National Research Council
Publisher: National Academies Press
ISBN: 0309168392
Category : Science
Languages : en
Pages : 238

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Book Description
Chemistry and chemical engineering have changed significantly in the last decade. They have broadened their scopeâ€"into biology, nanotechnology, materials science, computation, and advanced methods of process systems engineering and controlâ€"so much that the programs in most chemistry and chemical engineering departments now barely resemble the classical notion of chemistry. Beyond the Molecular Frontier brings together research, discovery, and invention across the entire spectrum of the chemical sciencesâ€"from fundamental, molecular-level chemistry to large-scale chemical processing technology. This reflects the way the field has evolved, the synergy at universities between research and education in chemistry and chemical engineering, and the way chemists and chemical engineers work together in industry. The astonishing developments in science and engineering during the 20th century have made it possible to dream of new goals that might previously have been considered unthinkable. This book identifies the key opportunities and challenges for the chemical sciences, from basic research to societal needs and from terrorism defense to environmental protection, and it looks at the ways in which chemists and chemical engineers can work together to contribute to an improved future.

From Matter to Life

From Matter to Life PDF Author: Sara Imari Walker
Publisher: Cambridge University Press
ISBN: 1107150531
Category : Philosophy
Languages : en
Pages : 517

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Book Description
This book tackles the most difficult and profound open questions about life and its origins from an information-based perspective.

Current Methods In Medicinal Chemistry And Biological Physics

Current Methods In Medicinal Chemistry And Biological Physics PDF Author: Carlton A. Taft
Publisher:
ISBN: 9788130802923
Category : Biophysics
Languages : en
Pages : 247

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Book Description
This book is aimed at, from students to advanced researchers, for anyone that is interested or works with current experimental and theoretical methods in medicinal chemistry and biological physics, with particular interest in chemoinformatics, bioinformatics, molecular modeling, QSAR, spectrometry, molecular biology and combinatorial chemistry for many therapeutic purposes. This book attempts to convey something of the fascination of working in these multidisciplinar areas, which overlap knowledge of chemistry, physics, biochemistry, biology and pharmacology. This second volume, in particular, contains 11 chapters, of which 6 are related to theoretical methods in medicinal chemistry and at least 5 deal with experimental/mixed methods. In the modern computational medicinal chemistry, quantum mechanics (QM) plays an important role since the associated methods can describe molecular energies, bond breaking or forming, charge transfer and polarization effects. Historically in drug design, QM ligand-based applications were devoted to investigations of electronic features, and they have also been routinely used in the development of quantum descriptors in quantitative structure-activity relationships (QSAR) approaches. In chapter 1, we present an overview of the state-of-the-art of quantum methods currently used in medicinal chemistry. Molecular Dynamics (MD) simulation is a sophisticated molecular modeling technique useful to describe molecular structures and macroscopic properties in very large molecular systems comprising hundreds or even thousands of atoms. In the field of drug discovery, MD simulation has been widely used to understand the biomolecule structure, drug and biomolecule interactions. The chapter 2 outlines the theory and practical details of MD approach and focuses on its application in studies of prediction of binding affinities for putative receptor-ligand complexes. In chapter 3 we discuss the important role of the homology modeling procedure in the drug discovery process. This strategy, associated with computational power and more sophisticated and robust algorithms, has been used to predict properties, energies, conformations and support the binding modes of ligands inside their receptor sites. This approach is vital in structure-based drug design (SBBD), since it can quickly predict the tertiary structure of the target whose structure has not been experimentally solved. In drug discovery research, a massive dataset of information is involved and the high throughput screening of typically millions of compounds plays an important role. Different docking protocols can be combined in order to predict binding models and affinities of a ligand with a target receptor, selecting as example the best drug-like compound candidates to further experimental assays, leading to a reduction in the time and cost of the drug discovery process. In the chapter 4, we discuss the general basis and aspects of this approach, presenting some successful cases in drug discovery. Structure-based approaches have increasingly demonstrated their value in drug design. The impact of these technologies on early discovery and lead optimization is significant. Although there is a multiplicity of different approaches being employed in early stages of drug discovery, structure-based drug design (SBDD) is one of the most powerful techniques, and has been used quite frequently by scientists in the pharmaceutical industry as well as in academic laboratories over the past twenty years. The evolution of medicinal chemistry has resulted in an increase in the number of successful applications of structure-based approaches. Some case studies are presented in chapter 5, exploring the value of structure-based virtual screening (SBVS) approaches in drug design, highlighting the identification of novel, potent and selective receptor modulators with drug like properties. Drug discovery has moved toward more rational strategies based on our increasing understanding of the fundamental principles of protein-ligand interactions. The combination of available knowledge of several 3D protein structures with hundreds of thousands of commercially available small molecules has attracted the attention of scientists from all over the world for the application of structure-based pharmacophore strategies. Pharmacophore approaches offer timely and cost-effective ways to identify new drug-like ligands for a variety of biological targets, and their utility in drug design is unquestionable. In the chapter 6, the understanding and limitations of this approach in drug R&D are discussed. Modern molecular biology has inundated drug discovery organizations with countless potential novel drug targets. A foremost challenge for the researchers is to validate this asset of targets with bioactive small molecules (bioproducts can also be included). Eventually, they will be developed into drugs for the more promising targets. The difficulty of finding a good small-molecule starting point is at the beginning of the searching for a proper chemical space that is well related to biological space. Drugs that are small molecules and act at enzyme targets account for over 50% of all medicines in therapeutically use in the marketplace. It is for this reason that chapter 7 take thermodynamics of the small molecule-target enzyme interactions into account to a limited scope. So far, the main purpose of this chapter is to provide a guidance profile of biocalorimetry and its role in drug discovery and development. The chapter 8 intends to describe how proteomes can be analyzed and studied. It addresses some available databases and bioinformatics tools. The description of certain instrumentation, such as mass spectrometry is also presented, but not highly detailed. The aim of chapter 9 is to introduce the reader to the wide spectrum of tools currently available in the drug validation process. With the conclusion of the human genome sequencing, an increase demand for target validation follows the development of high throughput techniques used in the identification of potential new drugs. In vitro technology as the RNA interference (RNAi) and recombinant protein array together with advances on the in vivo technology as the development of transgenic animals, including here the humanized ones, will certainly improve the safety of future clinical trials processes and ultimately play an important role in the treatment of several human diseases. A therapeutically significant drug may have limited utilization in clinical practice because of various shortcomings like poor organoleptic properties (chloranphenicol), poor bioavailability (ampicilin), lack of site specificity (antineoplastic agents), incomplete absorption (epinephrine), poor aqueous solubility (corticosteroids), high first-pass metabolism (propranolol), low chemical stability (penicillin), high toxicity (thalidomide) or other adverse effects. Sometimes, an adequate pharmaceutical formulation can overcome these drawbacks, but often the galenic formulation is inoperant and a chemical modification of active molecule is necessary to correct its pharmacokinetic profile. This chemical formulation process, whose objective is to convert an interesting active molecule into a clinically acceptable drug, often involves the so-called prodrug design , which is extensively discussed in chapter 10. The dominant role of synthetic chemistry has been increasingly challenged by knowledge of the structure and functions of enzymes, receptors, channels, membrane pumps, nucleic acids and by the exponential growth of information about biology, genetics and pathology, giving paramount importance to the dialogue between chemists and biologists. Nevertheless, as in the old days, the development of new chemical entities is still highly dependent on the ability of chemists to obtain, with simple, reliable, fast and possibly inexpensive methods, the molecules that have been designed. Even if it is an undisputed fact that biology has become exceedingly important in drug research, it is reasonable to imagine that chemistry, and in particular synthetic organic chemistry, will continue to play a fundamental role in academic research and in the R&D departments of drug companies of the third millennium. In chapter 11, we describe synthetic routes that have been used to synthesize the structures of top drugs in current usage. This provides an ideal way of introducing students to a wide range of applied chemistry with brief descriptions of the modes of action of these drugs. Some contents of this book therefore reflect our own ideas and personal experiences, which are presented in reviews of different topics here investigated. It is interesting to consider the information described in this book as the starting point to access available and varied knowledge in Medicinal Chemistry and Biological Physics or related areas.

Biodefense in the Age of Synthetic Biology

Biodefense in the Age of Synthetic Biology PDF Author: National Academies of Sciences, Engineering, and Medicine
Publisher: National Academies Press
ISBN: 0309465184
Category : Technology & Engineering
Languages : en
Pages : 189

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Book Description
Scientific advances over the past several decades have accelerated the ability to engineer existing organisms and to potentially create novel ones not found in nature. Synthetic biology, which collectively refers to concepts, approaches, and tools that enable the modification or creation of biological organisms, is being pursued overwhelmingly for beneficial purposes ranging from reducing the burden of disease to improving agricultural yields to remediating pollution. Although the contributions synthetic biology can make in these and other areas hold great promise, it is also possible to imagine malicious uses that could threaten U.S. citizens and military personnel. Making informed decisions about how to address such concerns requires a realistic assessment of the capabilities that could be misused. Biodefense in the Age of Synthetic Biology explores and envisions potential misuses of synthetic biology. This report develops a framework to guide an assessment of the security concerns related to advances in synthetic biology, assesses the levels of concern warranted for such advances, and identifies options that could help mitigate those concerns.

Green Synthetic Approaches for Biologically Relevant Heterocycles

Green Synthetic Approaches for Biologically Relevant Heterocycles PDF Author: Goutam Brahmachari
Publisher: Elsevier
ISBN: 0128205865
Category : Science
Languages : en
Pages : 642

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Book Description
Green Synthetic Approaches for Biologically Relevant Heterocycles, Second Edition, Volume One: Advanced Synthetic Techniques reviews this significant group of organic compounds within the context of sustainable methods and processes, expanding on the first edition with fully updated coverage and a whole range of new chapters. Volume One explores advanced synthetic techniques, with each chapter presenting in-depth coverage of various green protocols for the synthesis of a wide variety of bioactive heterocycles that are classified on the basis of ring-size and/or the presence of heteroatoms. Techniques covered range from high pressure cycloaddition reactions and microwave irradiation to sustainable one-pot domino reactions. This updated edition is an essential resource on sustainable approaches for academic researchers, R&D professionals, and students working across medicinal, organic, natural product and green chemistry. Provides fully updated coverage of the field of greener heterocycle synthesis Includes new chapters on varied multicomponent reactions, alongside both traditional and novel approaches Presents information in an accessible style with an emphasis on sustainability

New Synthetic Routes to Strained Organic Molecules

New Synthetic Routes to Strained Organic Molecules PDF Author: William Hoi Hong Li
Publisher:
ISBN:
Category :
Languages : en
Pages : 230

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Book Description


The Science and Applications of Synthetic and Systems Biology

The Science and Applications of Synthetic and Systems Biology PDF Author: Institute of Medicine
Publisher: National Academies Press
ISBN: 0309219396
Category : Science
Languages : en
Pages : 570

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Book Description
Many potential applications of synthetic and systems biology are relevant to the challenges associated with the detection, surveillance, and responses to emerging and re-emerging infectious diseases. On March 14 and 15, 2011, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to explore the current state of the science of synthetic biology, including its dependency on systems biology; discussed the different approaches that scientists are taking to engineer, or reengineer, biological systems; and discussed how the tools and approaches of synthetic and systems biology were being applied to mitigate the risks associated with emerging infectious diseases. The Science and Applications of Synthetic and Systems Biology is organized into sections as a topic-by-topic distillation of the presentations and discussions that took place at the workshop. Its purpose is to present information from relevant experience, to delineate a range of pivotal issues and their respective challenges, and to offer differing perspectives on the topic as discussed and described by the workshop participants. This report also includes a collection of individually authored papers and commentary.