Computational Approaches for Studying Enzyme Mechanism Part B
Computational Approaches for Studying Enzyme Mechanism Part B

Author:

Publisher: Academic Press

Published: 2016-08-03

Total Pages: 538

ISBN-13: 0128111089

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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
Computational Approaches for Studying Enzyme Mechanism Part A

Author:

Publisher: Academic Press

Published: 2016-08-04

Total Pages: 560

ISBN-13: 0128053631

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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

Computational Tools for Chemical Biology
Computational Tools for Chemical Biology

Author: Sonsoles Martín-Santamaría

Publisher: Royal Society of Chemistry

Published: 2017-11-01

Total Pages: 392

ISBN-13: 1782627006

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This book offers a fresh perspective on how computational tools can aid the chemical biology research community and drive new research.

Computer Simulation of Biomolecular Systems
Computer Simulation of Biomolecular Systems

Author: W.F. van Gunsteren

Publisher: Springer Science & Business Media

Published: 2013-11-27

Total Pages: 633

ISBN-13: 9401711208

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The third volume in the series on Computer Simulation of Biomolecular Systems continues with the format introduced in the first volume [1] and elaborated in the second volume [2]. The primary emphasis is on the methodological aspects of simulations, although there are some chapters that present the results obtained for specific systems of biological interest. The focus of this volume has changed somewhat since there are several chapters devoted to structure-based ligand design, which had only a single chapter in the second volume. It seems useful to set the stage for this volume by quoting from my preface to Volume 2 [2]. "The long-range 'goal of molecular approaches to biology is to describe living systems in terms of chemistry and physics. Over the last fifty years great progress has been made in applying the equations representing the underlying physical laws to chemical problems involv ing the structures and reactions of small molecules. Corresponding studies of mesoscopic systems have been undertaken much more recently. Molecular dynamics simulations, which are the primary focus of this volume, represent the most important theoretical approach to macromolecules of biological interest." ...

Quantum Medicinal Chemistry
Quantum Medicinal Chemistry

Author: Paolo Carloni

Publisher: John Wiley & Sons

Published: 2006-03-06

Total Pages: 294

ISBN-13: 3527605304

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Computational methods are transforming the work of chemical and pharmaceutical laboratories. Increasingly faster and more exact simulation algorithms have made quantum chemistry a valuable tool in the search for active substances. Written by a team of leading international quantum chemists, this book is aimed at both beginners as well as experienced users of quantum chemical methods. All commonly used quantum chemical methods are treated here, including Density Functional Theory, quantum and molecular mechanical approaches. Numerous examples illustrate the use of these methods for dealing with problems in pharmaceutical practice, whether the study of inhibitor binding, identifying the surface load of active substances or deriving molecular descriptors using quantum chemical tools. For anyone striving to stay ahead in this rapidly evolving field.

Contemporary Enzyme Kinetics and Mechanism
Contemporary Enzyme Kinetics and Mechanism

Author:

Publisher: Academic Press

Published: 2009-10-24

Total Pages: 703

ISBN-13: 0123847443

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Kinetic studies of enzyme action provide powerful insights into the underlying mechanisms of catalysis and regulation. These approaches are equally useful in examining the action of newly discovered enzymes and therapeutic agents. Contemporary Enzyme Kinetics and Mechanism, Second Edition presents key articles from Volumes 63, 64, 87, 249, 308 and 354 of Methods in Enzymology. The chapters describe the most essential and widely applied strategies. A set of exercises and problems is included to facilitate mastery of these topics. The book will aid the reader to design, execute, and analyze kinetic experiments on enzymes. Its emphasis on enzyme inhibition will also make it attractive to pharmacologists and pharmaceutical chemists interested in rational drug design.Of the seventeen chapters presented in this new edition, ten did not previously appear in the first edition. - Transient kinetic approaches to enzyme mechanisms - Designing initial rate enzyme assay - Deriving initial velocity and isotope exchange rate equations - Plotting and statistical methods for analyzing rate data - Cooperativity in enzyme function - Reversible enzyme inhibitors as mechanistic probes - Transition-state and multisubstrate inhibitors - Affinity labeling to probe enzyme structure and function - Mechanism-based enzyme inactivators - Isotope exchange methods for elucidating enzymatic catalysis - Kinetic isotope effects in enzyme catalysis - Site-directed mutagenesis in studies of enzyme catalysis

Fundamentals of Enzyme Kinetics
Fundamentals of Enzyme Kinetics

Author: Athel Cornish-Bowden

Publisher: Elsevier

Published: 2014-05-20

Total Pages: 245

ISBN-13: 1483161196

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Fundamentals of Enzyme Kinetics details the rate of reactions catalyzed by different enzymes and the effects of varying the conditions on them. The book includes the basic principles of chemical kinetics, especially the order of a reaction and its rate constraints. The text also gives an introduction to enzyme kinetics - the idea of an enzyme-substrate complex; the Michaelis-Menten equation; the steady state treatment; and the validity of its assumption. Practical considerations, the derivation of steady-state rate equations, inhibitors and activators, and two-substrate reactions are also explained. Problems after the end of each chapter have also been added, as well as their solutions at the end of the book, to test the readers' learning. The text is highly recommended for undergraduate students in biochemistry who wish to study about enzymes or focus completely on enzymology, as most of the mathematics used in this book, which have been explained in detail to remove most barriers of understanding, is elementary.

Reproducibility and Replicability in Science
Reproducibility and Replicability in Science

Author: National Academies of Sciences, Engineering, and Medicine

Publisher: National Academies Press

Published: 2019-10-20

Total Pages: 257

ISBN-13: 0309486165

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One of the pathways by which the scientific community confirms the validity of a new scientific discovery is by repeating the research that produced it. When a scientific effort fails to independently confirm the computations or results of a previous study, some fear that it may be a symptom of a lack of rigor in science, while others argue that such an observed inconsistency can be an important precursor to new discovery. Concerns about reproducibility and replicability have been expressed in both scientific and popular media. As these concerns came to light, Congress requested that the National Academies of Sciences, Engineering, and Medicine conduct a study to assess the extent of issues related to reproducibility and replicability and to offer recommendations for improving rigor and transparency in scientific research. Reproducibility and Replicability in Science defines reproducibility and replicability and examines the factors that may lead to non-reproducibility and non-replicability in research. Unlike the typical expectation of reproducibility between two computations, expectations about replicability are more nuanced, and in some cases a lack of replicability can aid the process of scientific discovery. This report provides recommendations to researchers, academic institutions, journals, and funders on steps they can take to improve reproducibility and replicability in science.

New Trends in Enzyme Catalysis and Biomimetic Chemical Reactions
New Trends in Enzyme Catalysis and Biomimetic Chemical Reactions

Author: Gertz I. Likhtenshtein

Publisher: Springer Science & Business Media

Published: 2007-05-08

Total Pages: 239

ISBN-13: 0306481103

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"This book is a view of enzyme catalysis by a physico-chemist with long-term experience in the investigation of structure and action mechanism of biological catalysts. This book is not intended to provide an exhaustive survey of each topic but rather a discussion of their theoretical and experimental background, and recent developments. The literature of enzyme catalysis is so vast and many scientists have made important contribution in the area, that it is impossible in the space allowed for this book to give a representative set of references. The author has tried to use reviews, and general principles of articles. He apologizes to those he has not been able to include. . ... The monograph is intended for scientists working on enzyme catalysis and adjacent areas such as chemical modeling of biological processes, homogeneous catalysis, biomedical research and biotechnology. The book can be use as a subsidiary manual for instructors, graduate and undergraduate students of university biochemistry and chemistry departments."--Pages ix-x.

Lignin
Lignin

Author: Matheus Poletto

Publisher: BoD – Books on Demand

Published: 2018-03-21

Total Pages: 310

ISBN-13: 9535139010

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Lignin - Trends and Applications consists of 11 chapters related to the lignin structure, modification, depolymerization, degradation process, computational modeling, and applications. This is a useful book for readers from diverse areas, such as physics, chemistry, biology, materials science, and engineering. It is expected that this book may expand the reader's knowledge about this complex natural polymer.