Computational Approaches For Studying Enzyme Mechanism Part B
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Computational Approaches For Studying Enzyme Mechanism Part B
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Author :
language : en
Publisher: Academic Press
Release Date : 2016-08-03
Computational Approaches For Studying Enzyme Mechanism Part B written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-08-03 with Science categories.
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
Computational Approaches For Studying Enzyme Mechanism Part A
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Author :
language : en
Publisher: Academic Press
Release Date : 2016-08-04
Computational Approaches For Studying Enzyme Mechanism Part A written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-08-04 with Science categories.
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
Approaches Of Computational Biophysics And Chemistry In Molecular Biology
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Author : Emil Alexov
language : en
Publisher: World Scientific
Release Date : 2025-01-17
Approaches Of Computational Biophysics And Chemistry In Molecular Biology written by Emil Alexov and has been published by World Scientific this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-01-17 with Science categories.
This book covers a broad range of computational biophysics and chemistry methods and their applications to study various phenomena in molecular biology. Highlighting recent advances, it emphasizes enhanced modeling accuracy, longer timescales, and the ability to simulate large biological macromolecules. From molecular dynamics simulations to quantum mechanical methods, the book discusses innovations like polarizable force fields and the integration of machine learning (ML) and artificial intelligence (AI) for improved predictive accuracy. It examines how these techniques predict the pKa of ionizable groups in biological macromolecules such as proteins, DNAs, and RNAs. It is demonstrated that the abovementioned computational techniques can be used to infer the pathogenicity of DNA variants and to reveal the molecular mechanism of diseases.By providing extensive coverage of various methods and diverse applications, this book is a valuable resource that links computational approaches to understanding molecular effects in human diseases, ultimately advancing the field of personalized medicine.
Cell Wide Identification Of Metabolite Protein Interactions
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Author : Aleksandra Skirycz
language : en
Publisher: Springer Nature
Release Date : 2022-09-30
Cell Wide Identification Of Metabolite Protein Interactions written by Aleksandra Skirycz and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-09-30 with Science categories.
This thorough volume explores protocols of proteome- and metabolome-wide strategies for the identification of protein-small molecule complexes in different organisms, in order to shed light on these important regulatory interactions. Experimental and computational strategies to characterize protein-metabolite interactions are discussed, and recent advances in enabling technologies are featured as well. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and expert implementation advice to ensure success in future research. Authoritative and practical, Cell-Wide Identification of Metabolite-Protein Interactions will aid researchers seeking a better understanding of the mechanisms of signal transduction occurring in the cell and assessing the effect of complex formation on cell physiology.
Coenzyme B12 Enzymes Part B
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Author :
language : en
Publisher: Academic Press
Release Date : 2022-05-27
Coenzyme B12 Enzymes Part B written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-05-27 with Science categories.
Coenzyme B12 Enzymes, Part B, Volume 169 in the Methods in Enzymology series, highlights new advances in the field, with this new volume presenting interesting chapters on Structural characterization of cobalamin-dependent radical SAM methylases, Purification and characterization of sequential cobalamin-dependent radical SAM methylases ThnK and TokK in -lactam antibiotic biosynthesis, Characterization of the cobalamin-dependent radical S-adenosyl-L-methionine enzyme C-methyltransferase Fom3 in fosfomycin biosynthesis, Studies of OxsB and GenK, two B12-dependent radical SAM enzymes involved in natural product biosynthesis, Purification and structural elucidation of the cobalamin-dependent radical SAM enzyme OxsB, and more. Other chapters discuss Methods for studying the mechanisms of B12 enzymes, Computational investigations of B12 dependent enzymatic reactions, Using kinetic isotope effects to probe the mechanisms of adenosylcobalamin-dependent enzymes, Steady-state and pre-steady state kinetic analysis of ornithine 4,5-aminomutase, 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 B12 Enzymes
Computational Approaches To Biochemical Reactivity
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Author : Gábor Náray-Szabó
language : en
Publisher: Springer Science & Business Media
Release Date : 2006-04-11
Computational Approaches To Biochemical Reactivity written by Gábor Náray-Szabó and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-04-11 with Science categories.
A quantitative description of the action of enzymes and other biological systems is both a challenge and a fundamental requirement for further progress in our und- standing of biochemical processes. This can help in practical design of new drugs and in the development of artificial enzymes as well as in fundamental understanding of the factors that control the activity of biological systems. Structural and biochemical st- ies have yielded major insights about the action of biological molecules and the mechanism of enzymatic reactions. However it is not entirely clear how to use this - portant information in a consistent and quantitative analysis of the factors that are - sponsible for rate acceleration in enzyme active sites. The problem is associated with the fact that reaction rates are determined by energetics (i. e. activation energies) and the available experimental methods by themselves cannot provide a correlation - tween structure and energy. Even mutations of specific active site residues, which are extremely useful, cannot tell us about the totality of the interaction between the active site and the substrate. In fact, short of inventing experiments that allow one to measure the forces in enzyme active sites it is hard to see how can one use a direct experimental approach to unambiguously correlate the structure and function of enzymes. In fact, in view of the complexity of biological systems it seems that only computers can handle the task of providing a quantitative structure-function correlation.
Using Mass Spectrometry For Biochemical Studies On Enzymatic Domains From Polyketide Synthases
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Author : Matthew Jenner
language : en
Publisher: Springer
Release Date : 2016-04-27
Using Mass Spectrometry For Biochemical Studies On Enzymatic Domains From Polyketide Synthases written by Matthew Jenner and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-04-27 with Science categories.
This thesis reports studies on the substrate specificity of crucial ketosynthase (KS) domains from trans-AT Polyketide Synthases (PKSs). Using a combination of electrospray ionisation-mass spectrometry (ESI-MS) and simple N-acetyl cysteamine (SNAC) substrate mimics, the specificity of a range of KS domains from the bacillaene and psymberin PKSs have been succsessfully studied with regard to the initial acylation step of KS-catalysis. In addition, the ability to alter the substrate tolerance of KS domains by simple point mutations in the active site has been demonstrated. A series of acyl-ACPs have been synthesised using a novel methodology and employed to probe the substrate specificity of both KS domains and the previously uncharcterised acyl hydrolase domain, PedC. KS-catalysed chain elongation reactions have also been conducted and monitored by ESI-MS/MS. All KS domains studied exhibited higher substrate specificity at the elongation step than in the preceeding acylation step. Furthermore, a mechanism of reversible acylation is proposed using the PsyA ACP1-KS1 di-domain. The findings in this thesis provide important insights into mechanisms of KS specificity and show that mutagenesis can be used to expand the repertoire of acceptable substrates for future PKS engineering.
Enzyme Kinetics And Mechanisms Part E Energetics Of Enzyme Catalysis
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Author :
language : en
Publisher: Elsevier
Release Date : 1999-09-06
Enzyme Kinetics And Mechanisms Part E Energetics Of Enzyme Catalysis written by and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 1999-09-06 with Science categories.
This volume supplements Volumes 63, 64, 87, and 249 of Methods in Enzymology. These volumes provide a basic source for the quantitative interpretation of enzyme rate data and the analysis of enzyme catalysis. Among the major topics covered are Engergetic Coupling in Enzymatic Reactions, Intermediates and Complexes in Catalysis, Detection and Properties of Low Barrier Hydrogen Bonds, Transition State Determination, and Inhibitors.The critically acclaimed laboratory standard for more than forty years, Methods in Enzymology is one of the most highly respected publications in the field of biochemistry. Since 1955, each volume has been eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. Now with more than 300 volumes (all of them still in print), the series contains much material still relevant today--truly an essential publication for researchers in all fields of life sciences.
Computational Approaches To Study The Impact Of Mutations On Disease And Drug Resistance
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Author : Nir Ben-Tal
language : en
Publisher: Frontiers Media SA
Release Date : 2022-01-27
Computational Approaches To Study The Impact Of Mutations On Disease And Drug Resistance written by Nir Ben-Tal and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-01-27 with Science categories.
Complex Enzymes In Microbial Natural Product Biosynthesis Part B Polyketides Aminocoumarins And Carbohydrates
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Author :
language : en
Publisher: Academic Press
Release Date : 2009-04-11
Complex Enzymes In Microbial Natural Product Biosynthesis Part B Polyketides Aminocoumarins And Carbohydrates written by and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-04-11 with Science categories.
Microbial natural products have been an important traditional source of valuable antibiotics and other drugs but interest in them waned in the 1990s when big pharma decided that their discovery was no longer cost-effective and concentrated instead on synthetic chemistry as a source of novel compounds, often with disappointing results. Moreover understanding the biosynthesis of complex natural products was frustratingly difficult. With the development of molecular genetic methods to isolate and manipulate the complex microbial enzymes that make natural products, unexpected chemistry has been revealed and interest in the compounds has again flowered. This two-volume treatment of the subject will showcase the most important chemical classes of complex natural products: the peptides, made by the assembly of short chains of amino acid subunits, and the polyketides, assembled from the joining of small carboxylic acids such as acetate and malonate. In both classes, variation in sub-unit structure, number and chemical modification leads to an almost infinite variety of final structures, accounting for the huge importance of the compounds in nature and medicine. Gathers tried and tested methods and techniques from top players in the field Provides an extremely useful reference for the experienced research scientist Covers biosynthesis of Polyketides, Tarpenoids, Aminocoumarins and Crabohydrates