Search

Effect of High-Pressure Technologies on Enzyme: Science and Applications provides a deep, practical discussion of high-pressure processing (HPP) and high-pressure homogenization (HPH) technologies and biochemical approaches, applied across research and industry, with applications ranging from food to pharmaceuticals and commercial enzyme production. Early chapters discuss foundational aspects of HPP and HPH approaches; the science of enzyme modification; and basic aspects of enzyme activity, stability, and structure as studied in biochemical processes. Later chapters consider the effect of HPP and HPH technologies and their mechanisms of controlling enzyme modification to improve enzyme performance for chosen applications. Special attention is paid to the application of HPP and HPH technologies and enzyme modifications in food processing, microbial enzyme modification, drug discovery, and production of other commercial enzymes, as well as the challenges of undesirable enzyme inactivation. The final chapter discusses future directions of the field and technologies, and expanded applications. Offers a broad overview of HPP and HPH approaches and technologies applied in enzyme modification Introduces fundamental aspects of enzyme activity, stability, and structure as studied in biochemical processes and applications Discusses applications of HPP- and HPH-based enzyme modifications in food processing, microbial enzyme modification, drug discovery, and production of other commercial enzymes Includes chapter contributions from international leaders in the field, across research and industry

Biochemical Pathways and Environmental Responses in Plants, Part A, Volume 676 in the Methods in Enzymology series highlights new advances in the field with this new volume presenting interesting chapters on topics such as Structure, function, and engineering of plant polyketide synthases, A sensitive LC-MS/MS assay for enzymatic characterization of methylthioalkylmalate synthase involved in glucosinolate side-chain elongation, Assaying formate-tetrahydrofolate ligase with monoglutamylated and polyglutamylated substrates using a fluorescence-HPLC based assay, An Approach to Nearest Neighbor Analysis of Pigmented Protein Complexes by Using Chemical Crosslinking in Combination with Mass Spectrometry, and much more. Other chapters cover Biochemical characterization of plant aromatic aminotransferases, Functional Analysis of Phosphoethanolamine N-methyltransferase (PMT) in Plants and Parasites, A structure-guided computational screening approach for predicting plant enzyme-metabolite interactions, Plant metacaspase: an example of microcrystal structure determination and analysis, Biocatalytic system for comparative assessment of functional association of cytochrome P450 monooxygenases with their redox partners, Dirigent Protein Family Function and Structure, and more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in Methods in Enzymology series Includes the latest information on Biochemical pathways and environmental responses in plants

Modifications and Targeting of Protein Termini, Volume 684 in the Methods in Enzymology series serial highlights new advances in the field, with this new volume presenting interesting chapters pn a variety of timely topics, including Optimizing purification and activity assays of N-terminal methyltransferase complexes, In vitro reconstitution of hierarchical steps of Arg/N-degron pathway, Identification of N-degrons and N-recognins by using peptide-pull-downs combined with quantitative proteomics, A decoupled Virotrap approach to study the interactomes of N-terminal proteoforms, Monitoring ADO-dependent proteolysis in cells using fluorescent reporter proteins, Site-specific a-N-terminal methylation on peptides through chemical and enzymatic methods, and more. Additional sections cover Monitoring the interactions between N-degrons and N-recognins of the Arg/N-degron pathway, Characterization and chemical modulation of p62/SQSTM1 as an autophagic N-recognin of the Arg/N-degron pathway, Analysis of higher plant N-degron pathway components and substrates via expression in S. cerevisiae, and so much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology serials Updated release includes the latest information on Modifications and Targeting of Protein Termini

Protocols and Applications in Enzymology provides instruction on the experimental procedures of enzyme isolation techniques, innovative screening techniques, and instrument enabled enzyme assays and their underlying principles, among other protocols. The book serves as a one-stop solution for those working with different enzyme protocols in the fields of biochemistry, microbiology, biotechnology and allied subjects. Each chapter offers a full overview of protocol key resources, materials required, quantifiable and statistical analysis, optimization and troubleshooting, safety considerations, and standards. Applications are discussed across distribution and diversity of microbial enzymes, enzyme screening, enzymes in solid state fermentations, enzyme assays, enzyme kinetics, and biotechnological uses. Provides step-by-step instruction on enzyme protocols and applications, with actionable discussions of needed resources, materials, quantification and statistical analysis, optimization and troubleshooting, safety considerations and standards Presents easy to read, reproducible protocols for researchers and students across academia and industry Includes color diagrams that illustrate key concepts

This 2nd edition of the book on DNA methyltransferases has been comprehensively updated to reflect many novel research findings regarding the structure, function, and technology of these enzymes that have emerged over the past 6 years.Like the previous edition, this 2nd edition explains the biochemical properties of DNA methyltransferases, describing their structures, mechanisms and biological roles in bacteria, humans and plants. It also discusses the biological processes of reading DNA methylation and the mechanisms of DNA demethylation. This volume highlights the newest findings on DNA methyltransferase inhibitors and their use in cancer therapy as well as the latest epigenome editing systems based on these enzymes. Overall, this 2nd edition comprehensively summarizes the current state of research in the field of DNA methylation and DNA methyltransferase and is essential reading for early career and advanced researchers in this exciting field.

Biocatalysis in Green Solvents offers a pragmatic overview and instruction in biocatalysis and enzymology of green solvents for sustainable industries and medicine, running from concept to application. Here, international experts in the field discuss structure-function relationships of enzymes in ionic liquids (ILs) and examine how enzymes act as selective catalysts for fine biochemical synthesis in non-aqueous environments. Several integral green biochemical processes of biocatalytic transformation and pure product separation are described in detail. Application focused chapters discuss the role of biocatalysis in creating and implementing deep eutectic solvents, biomass derived solvents, sub and supercritical fluids, carbon dioxide biphasic systems, and enzymatic membrane reactors, as well as applying these biocatalytic processes in drug discovery and production. Examines the structure-function relationships of enzymes in ionic liquids and biocatalytic processes for various applications across industry and medicine Includes clear instruction in core green biochemical processes—of (bio)catalytic transformation—and pure product separation Features chapter contributions from international experts across academia and industry

Authored by leading experts in the enzymology of natural product biosynthesis, this completely revised and updated edition provides a description of 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. Although some 500 000 – 600 000 natural products have been isolated and characterized over the past two centuries, there may be a 10-fold greater inventory awaiting immediate exploration based on biosynthetic gene cluster predictions. The approach of this book is to codify the chemical logic that underlies each natural product structural class as they are assembled from building blocks of primary metabolism. This second edition integrates many new findings into the sets of principles of the first edition that parsed categories of natural product chemistries into the underlying enzymatic mechanisms and the catalytic machinery for building the varied and complex end product metabolites. New chapters include evaluation of a core set of thermodynamically activated but kinetically stable metabolites that power both primary and secondary metabolic pathways. Also, after decades of uncertainty about the existence of various pericyclase classes, a series of genome mining, heterologous expression, and enzymatic activity characterization have validated a plethora of pericyclases over the past decade. The several types of pericyclases are involved in biosynthetic complexity generation of almost every major category of natural products. This text will serve as a reference point for chemists of every subdiscipline, including synthetic organic chemists and medicinal chemists. It will also be valuable to bioinformatic and computational biologists, pharmacognocists and chemical ecologists, and bioengineers and synthetic biologists.

mRNA 3'End Processing and Stability, Volume 655 in the Methods in Enzymology series, highlights new advances in the field, with this new volume presenting interesting chapters on a variety of timely topics. Each chapter is written by an international board of authors. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series Updated release includes the latest information on mRNA 3'End Processing and Stability

This new volume of Methods in Enzymology continues the legacy of this premier serial with quality chapters authored by leaders in the field. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series

This book discusses a broad range of basic and advanced topics in the field of protein structure, function, folding, flexibility, and dynamics. Starting with a basic introduction to protein purification, estimation, storage, and its effect on the protein structure, function, and dynamics, it also discusses various experimental and computational structure determination approaches; the importance of molecular interactions and water in protein stability, folding and dynamics; kinetic and thermodynamic parameters associated with protein-ligand binding; single molecule techniques and their applications in studying protein folding and aggregation; protein quality control; the role of amino acid sequence in protein aggregation; muscarinic acetylcholine receptors, antimuscarinic drugs, and their clinical significances. Further, the book explains the current understanding on the therapeutic importance of the enzyme dopamine beta hydroxylase; structural dynamics and motions in molecularmotors; role of cathepsins in controlling degradation of extracellular matrix during disease states; and the important structure-function relationship of iron-binding proteins, ferritins. Overall, the book is an important guide and a comprehensive resource for understanding protein structure, function, dynamics, and interaction.

Chemical and Synthetic Biology Approaches to Understand Cellular Functions - Part C, Volume 633, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial. This release includes sections on Next generation probes for molecular imaging in cells, Competitive binding assay for biotin and biotin derivatives, based on avidin and biotin-4-fluorescein, Converting avidin to bind ligands other than biotin, especially steroids, Chemoenzymatic Labeling Strategy, Engineered Siderophores, Small molecules to inhibit bacterial population behavior, NMR tube bioreactor, Small molecule controlled RAS activation system, Small molecule regulated Cas9, the Design and application of synthetic receptors, and much more. Contains the authority of authors who are leaders in their field Provides a comprehensive source on new methods and research in enzymology

Die enzymatische Ligation von Peptid- und Proteinfragmenten stellt eine große Herausforderung dar. Unter anderem fehlen geeignete Biokatalysatoren, welche sowohl eine ausreichende Interaktion mit dem Peptidrückgrat aufweisen als auch die Knüpfung einer Peptidbindung katalysieren. Lars Franke untersucht die Möglichkeit, die hervorragenden Ligationseigenschaften der Surfactin-Thioesterase II auf anionisches Rattentrypsin II zu übertragen, welches seinerseits eine geeignete Interaktion mit dem Peptidrückgrat zeigt. Während die Katalysemechanismen beider Enzyme im Wesentlichen dem der Serinesterasen entsprechen, besteht ein Unterschied in der Architektur des Oxyanion-Lochs. Entsprechende Oxyanion-Loch-Mutanten des Trypsin wurden erzeugt, bezüglich ihrer katalytischen Eigenschaften untersucht und ihr Nutzen für enzymatische Ligationsreaktionen quantifiziert. Im Ergebnis konnte der Autor zwei Trypsinvarianten generieren, welche für die Peptidligation und die Proteinmodifizierung geeignet sind.Der Autor Lars Franke ist in der Entwicklung von maßgeschneiderten Enzymen für die Peptidsynthese und Proteinmodifizierung am Charles-Tannford-Proteinzentrum in Halle tätig.

Post-translational Modifications That Modulate Enzyme Activity, Volume 626 in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Updated chapters include Crosstalk between cellular metabolism and histone acetylation, Isolation of protein complexes and modifications that regulate transcriptional machinery, High-throughput phosphoproteome mapping through multiplexed mass spectrometry, Differentiation of D and L epimerization in proteins, Biochemical analysis of protein arginylation, Site-specific Determination of lysine acetylation stoichiometries on the proteome-scale, Genomic and biochemical analysis of RNA post-transcriptional modifications, Isolation and characterization of glycosylated (neuro)peptides, and more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series Includes the latest information on Post-translational Modifications that Modulate Enzyme Activity

Metabolons and Supramolecular Enzyme Assemblies, Volume 617 in the Methods in Enzymology series, highlights new advances in the field, with this new volume presenting interesting chapters on a variety of topics, including Dynamic plant metabolons, TCA cycle metabolons, the Chemotactic assembly of metabolons, Repurposing peroxisomes for metabolic engineering, Repurposing yeast mitochondria for metabolic engineering, Repurposing plant compartments for metabolic engineering, Protein scaffolds for pathway co-localization on lipid droplets, Engineered enzyme assemblies for metabolic engineering, NRPS assembly lines and P450 interactions, and much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in this series on enzymology Updated release includes the latest information on dynamic plant metabolons, TCA cycle metabolons, the chemotactic assembly of metabolons, and much more

This enzymology textbook for graduate and advanced undergraduate students covers the syllabi of most universities where this subject is regularly taught. It focuses on the synchrony between the two broad mechanistic facets of enzymology: the chemical and the kinetic, and also highlights the synergy between enzyme structure and mechanism. Designed for self-study, it explains how to plan enzyme experiments and subsequently analyze the data collected. The book is divided into five major sections: 1] Introduction to enzymes, 2] Practical aspects, 3] Kinetic Mechanisms, 4] Chemical Mechanisms, and 5] Enzymology Frontiers. Individual concepts are treated as stand-alone chapters; readers can explore any single concept with minimal cross-referencing to the rest of the book. Further, complex approaches requiring specialized techniques and involved experimentation (beyond the reach of an average laboratory) are covered in theory with suitable references to guide readers. The book provides students, researchers and academics in the broad area of biology with a sound theoretical and practical knowledge of enzymes. It also caters to those who do not have a practicing enzymologist to teach them the subject.

Authored by leading experts in the enzymology of natural product biosynthesis, this textbook provides a thorough description of 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. Although some 500-600,000 natural products have been isolated and characterized over the past two centuries, there may be a 10-fold greater inventory awaiting immediate exploration based on biosynthetic gene cluster predictions. The approach of this book is to codify the chemical logic that underlies each natural product structural class as they are assembled from building blocks of primary metabolism. This text will serve as a reference point for chemists of every subdiscipline, including synthetic organic chemists and medicinal chemists. It will also be valuable to bioinformatic and computational biologists, to pharmacognocists and chemical ecologists, to bioengineers and synthetic biologists.

Structural and Mechanistic Enzymology, Volume 109, the latest release in the Advances in Protein Chemistry and Structural Biology series, is an essential resource for protein chemists. Chapters in this new volume include Collagenolytic Matrix Metalloproteinase Structure–Function Relationships: Insights from Molecular Dynamics Studies, Computational Glycobiology: Mechanistic Studies of Carbohydrate-Active Enzymes and Implication for Inhibitor Design, Computational Biochemistry-Enzyme Mechanisms Explored, and A Paradigm for C-H Bond Cleavage: Structural and Functional Aspects of Transition State Stabilization by Mandelate Racemase. This series presents new information on protocols and analysis of proteins, with each volume guest edited by leading experts in a broad range of protein-related topics. This volume presents state-of-the-art contributions, providing insights into the relationship between enzyme structure, catalysis, and function. Provides cutting-edge developments in protein chemistry and structural biology Features new information about protocols and analysis of proteins Contains chapters written by authorities in their respective fields Targeted to a wide audience of researchers, specialists and students

Enzymology at the Membrane Interface, the latest volume in the Methods in Enzymology series, covers a subset of enzymes that work in the environment of the biological cell membrane. This field, called interfacial enzymology, involves a special series of experimental approaches for the isolation and study of these enzymes. Covers a subset of enzymes that work in the environment of the biological cell membrane Offers a series of experimental approaches for the isolation and study of enzymes

Single-Molecule Enzymology, Part B, the latest volume in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers research methods in single-molecule enzymology, and includes sections on such topics as force-based and hybrid approaches, fluorescence, high-throughput sm enzymology, and nanopore and tethered particle motion. Continues the legacy of this premier serial with quality chapters authored by leaders in the field Covers research methods in single-molecule enzymology Contains sections on such topics as force-based and hybrid approaches, fluorescence, high-throughput sm enzymology, and nanopore and tethered particle motion

Enzymology at the Membrane Interface: Intramembrane Proteases, Volume 584, the latest release in the Methods in Enzymology series, covers a subset of enzymes that work in the environment of the biological cell membrane. This field, called interfacial enzymology, involves a special series of experimental approaches for the isolation and study of these enzymes. Covers a subset of enzymes that work in the environment of the biological cell membrane Offers a series of experimental approaches for the isolation and study of enzymes

This book focuses on the regulation of transcription and translation in Archaea and arising insights into the evolution of RNA processing pathways. From synthesis to degradation and the implications of gene expression, it presents the current state of knowledge on archaeal RNA biology in 13 chapters. Topics covered include the modification and maturation of RNAs, the function of small non-coding RNAs and the CRISPR-Cas defense system. While Archaea have long been considered exotic microbial extremophiles, they are now increasingly being recognized as important model microorganisms for the study of molecular mechanisms conserved across the three domains of life, and with regard to the relevance of similarities and differences to eukaryotes and bacteria. This unique book offers a valuable resource for all readers interested in the regulation of gene expression in Archaea and RNA metabolism in general.

Enzymes of Epigenetics: Part B, one of two new volumes in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers research methods that are employed in the study of epigenetic regulation, including structural, biochemical, molecular, biological, cellular, computational, and systems approaches. Topics include chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies, and small molecule epigenetic regulators and biological connections. Continues the legacy of this premier serial with quality chapters authored by leaders in the field Contains two new volumes that cover research methods in enzymes of epigenetics Covers such topics as chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies and small molecule epigenetic regulators, and biological connections

Computational Approaches for Studying Enzyme Mechanism, Part B is the first of two volumes in the Methods in Enzymology series that focuses on computational approaches for studying enzyme mechanism. The serial achieves the critically acclaimed gold standard of laboratory practices and remains one of the most highly respected publications in the molecular biosciences. Each volume is eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. Now with over 550 volumes, the series remains a prominent and essential publication for researchers in all fields of the life sciences and biotechnology, including biochemistry, chemical biology, microbiology, synthetic biology, cancer research, genetics, and other fields of study. Focuses on computational approaches for studying enzyme mechanism Continues the legacy of this premier serial with quality chapters authored by leaders in the field Covers research methods in intermediate filament associated proteins, and contains sections on such topics as lamin-associated proteins, intermediate filament-associated proteins and plakin, and other cytoskeletal cross-linkers

Enzymes of Epigenetics, one of two new volumes in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers research methods that are employed to study epigenetic regulation and includes structural, biochemical, molecular, biological, cellular, computational, and systems approaches. Topics include chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies and small molecule epigenetic regulators, and biological connections Continues the legacy of this premier serial with quality chapters authored by leaders in the field Contains two new volumes covering research methods in enzymes of epigenetics Covers topics such as chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies and small molecule epigenetic regulators and biological connections

Computational Approaches for Studying Enzyme Mechanism Part A, is the first of two volumes in the Methods in Enzymology series, focusses on computational approaches for studying enzyme mechanism. The serial achieves the critically acclaimed gold standard of laboratory practices and remains one of the most highly respected publications in the molecular biosciences. Each volume is eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. Now with over 550 volumes, the series remains a prominent and essential publication for researchers in all fields of life sciences and biotechnology, including biochemistry, chemical biology, microbiology, synthetic biology, cancer research, and genetics to name a few. Focuses on computational approaches for studying enzyme mechanism Continues the legacy of this premier serial with quality chapters authored by leaders in the field Covers research methods in intermediate filament associated proteins, and contains sections on such topics as lamin-associated proteins, intermediate filament-associated proteins and plakin, and other cytoskeletal cross-linkers

This work establishes linear-scaling density-functional theory (DFT) as a powerful tool for understanding enzyme catalysis, one that can complement quantum mechanics/molecular mechanics (QM/MM) and molecular dynamics simulations. The thesis reviews benchmark studies demonstrating techniques capable of simulating entire enzymes at the ab initio quantum-mechanical level of accuracy. DFT has transformed the physical sciences by allowing researchers to perform parameter-free quantum-mechanical calculations to predict a broad range of physical and chemical properties of materials. In principle, similar methods could be applied to biological problems. However, even the simplest biological systems contain many thousands of atoms and are characterized by extremely complex configuration spaces associated with a vast number of degrees of freedom. The development of linear-scaling density-functional codes makes biological molecules accessible to quantum-mechanical calculation, but has yet to resolve the complexity of the phase space. Furthermore, these calculations on systems containing up to 2,000 atoms can capture contributions to the energy that are not accounted for in QM/MM methods (for which the Nobel prize in Chemistry was awarded in 2013) and the results presented here reveal profound shortcomings in said methods.