Download or read book Thermodynamic Theory of Site Specific Binding Processes in Biological Macromolecules written by Enrico Di Cera and published by Cambridge University Press. This book was released on 2005-02-17 with total page 316 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides the first systematic treatment of the thermodynamic theory of site-specific effects in biological macromolecules. It describes the phenomenological and conceptual bases required to allow a mechanistic understanding of these effects from analysis of experimental data. The thermodynamic theory also results in novel experimental strategies that enable the derivation of information on local, site-specific properties of a macromolecular system from analysis of perturbed global properties. The treatment focuses on binding phenomena, but is amenable to extension both conceptually and formally to the analysis of other cooperative processes, such as folding and helix-coil transitions. This book will interest any scientist involved in structure-function studies of biological macromolecules, or as a text for graduate students in biochemistry and biophysics.
Download or read book Binding and Linkage written by Jeffries Wyman and published by University Science Books. This book was released on 1990 with total page 358 pages. Available in PDF, EPUB and Kindle. Book excerpt: Ligand-macromolecule interactions are of fundamental importance in the control of biological processes. This book applies the principles of linkage thermodynamics to polyfunctional macromolecular systems under equilibrium conditions, and describes the binding, linkage, and feedback phenomena that lead to control of complex metabolic processes. The first chapter sets out the different processes (conformational changes, changes in state of aggregation, phase changes) involving biological macromolecules which are affected by chemical variables (such as ligands) or physical variables (such as temperature and pressure). The general effects of ligands on micromolecular conformations and interactions are illustrated with specific examples from the respiratory proteins, electron-transport proteins, and nucleic acid binding proteins. Subsequent chapters develop these themes, and describe in detail how the mathematics of regulation and control can be applied to macromolecules in biological system.
Download or read book Handbook of Thermal Analysis and Calorimetry written by Richard B. Kemp and published by Elsevier. This book was released on 1999-12-13 with total page 1061 pages. Available in PDF, EPUB and Kindle. Book excerpt: The applications and interest in thermal analysis and calorimetry have grown enormously during the last half of the 20th century. These techniques have become indispensable in the study of processes such as catalysis, hazards evaluation etc., and in measuring important physical properties quickly, conveniently and with markedly improved accuracy. Consequently, thermal analysis and calorimetry have grown in stature and more scientists and engineers have become at least part-time, practitioners. People new to the field therefore need a source of information describing the basic principles and current state of the art. The last volume of this 4 volume handbook, devoted to many aspects of biological thermal analysis and calorimetry, completes a comprehensive review of this important area. All chapters have been prepared by recognized experts in their respective fields. The approach taken is "how and what to do and when to do it". The complete work is a valuable addition to the already existing literature.
Download or read book Equilibria and Kinetics of Biological Macromolecules written by Prof. Jan Hermans and published by John Wiley & Sons. This book was released on 2013-10-22 with total page 411 pages. Available in PDF, EPUB and Kindle. Book excerpt: Progressively builds a deep understanding of macromolecular behavior Based on each of the authors' roughly forty years of biophysics research and teaching experience, this text instills readers with a deep understanding of the biophysics of macromolecules. It sets a solid foundation in the basics by beginning with core physical concepts such as thermodynamics, quantum chemical models, molecular structure and interactions, and water and the hydrophobic effect. Next, the book examines statistical mechanics, protein-ligand binding, and conformational stability. Finally, the authors address kinetics and equilibria, exploring underlying theory, protein folding, and stochastic models. With its strong emphasis on molecular interactions, Equilibria and Kinetics of Biological Macromolecules offers new insights and perspectives on proteins and other macromolecules. The text features coverage of: Basic theory, applications, and new research findings Related topics in thermodynamics, quantum mechanics, statistical mechanics, and molecular simulations Principles and applications of molecular simulations in a dedicated chapter and interspersed throughout the text Macromolecular binding equilibria from the perspective of statistical mechanics Stochastic processes related to macromolecules Suggested readings at the end of each chapter include original research papers, reviews and monographs, enabling readers to explore individual topics in greater depth. At the end of the text, ten appendices offer refreshers on mathematical treatments, including probability, computational methods, Poisson equations, and defining molecular boundaries. With its classroom-tested pedagogical approach, Equilibria and Kinetics of Biological Macromolecules is recommended as a graduate-level textbook for biophysics courses and as a reference for researchers who want to strengthen their understanding of macromolecular behavior.
Download or read book Linkage Thermodynamics of Macromolecular Interactions written by and published by Academic Press. This book was released on 1998-06-24 with total page 485 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume commemorates the 50th anniversary of the appearance in Volume 4 in 1948 of Dr. Jeffries Wyman's famous paper in which he "laid down" the foundations of linkage thermodynamics. Experts in this area contribute articles on the state-of-the-art of this important field and on new developments of the original theory. Among the topics covered in this volume are electrostatic contributions to molecular free energies in solution; site-specific analysis of mutational effects in proteins; allosteric transitions of the acetylcholine receptor; and deciphering the molecular code of hemoglobin allostery.
Download or read book Energetics of Biological Macromolecules Part C written by and published by Elsevier. This book was released on 2000-08-09 with total page 581 pages. Available in PDF, EPUB and Kindle. Book excerpt: Volume 323 of Methods in Enzymology is dedicated to the energetics of biological macromolecules. Understanding the molecular mechanisms underlying a biological process requires detailed knowledge of the structural relationships within the system and an equally detailed understanding of the energetic driving forces that control the structural interactions. This volume presents modern thermodynamic techniques currently being utilized to study the energetic driving forces in biological systems. It will be a useful reference source and textbook for scientists and students whose goal is to understand the energetic relationships between macromoleculer structures and biological functions. This volume supplements Volumes 259 and Volume 295 of Methods in Enzymology. Key Features * Probing Stability of Helical Transmembrane Proteins * Energetics of Vinca Alkaloid Interactions with Tubulin * Deriving Complex Ligand Binding Formulas * Mathematical Modeling of Cooperative Interactions in Hemoglobin * Analysis of Interactions of Regulatory Protein TyrR with DNA * Parsing Free Energy of Drug-DNA Interactions * Use of Fluorescence as Thermodynamics Tool
Download or read book Energetics of Biological Macromolecules Part D written by Jo M. Holt and published by Elsevier. This book was released on 2004-04-02 with total page 315 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume focuses on the cooperative binding aspects of energetics in biological macromolecules. Methodologies such as NMR, small-angle scattering techniques for analysis, calorimetric analysis, fluorescence quenching, and time resolved FRET measurements are discussed. *Methods for Evaluating Cooperativity in a Dimeric Hemoglobin*Multiple-Binding of Ligands to a Linear Biopolymer*Fluorescence Quenching Methods to Study Protein-Nucleic Acid Interactions*Linked Equilibria in Biotin Repressor Function: Thermodynamic, Structural and Kinetic Analysis
Download or read book Biomolecular Thermodynamics written by Douglas Barrick and published by CRC Press. This book was released on 2017-09-11 with total page 954 pages. Available in PDF, EPUB and Kindle. Book excerpt: "an impressive text that addresses a glaring gap in the teaching of physical chemistry, being specifically focused on biologically-relevant systems along with a practical focus.... the ample problems and tutorials throughout are much appreciated." –Tobin R. Sosnick, Professor and Chair of Biochemistry and Molecular Biology, University of Chicago "Presents both the concepts and equations associated with statistical thermodynamics in a unique way that is at visual, intuitive, and rigorous. This approach will greatly benefit students at all levels." –Vijay S. Pande, Henry Dreyfus Professor of Chemistry, Stanford University "a masterful tour de force.... Barrick's rigor and scholarship come through in every chapter." –Rohit V. Pappu, Edwin H. Murty Professor of Engineering, Washington University in St. Louis This book provides a comprehensive, contemporary introduction to developing a quantitative understanding of how biological macromolecules behave using classical and statistical thermodynamics. The author focuses on practical skills needed to apply the underlying equations in real life examples. The text develops mechanistic models, showing how they connect to thermodynamic observables, presenting simulations of thermodynamic behavior, and analyzing experimental data. The reader is presented with plenty of exercises and problems to facilitate hands-on learning through mathematical simulation. Douglas E. Barrick is a professor in the Department of Biophysics at Johns Hopkins University. He earned his Ph.D. in biochemistry from Stanford University, and a Ph.D. in biophysics and structural biology from the University of Oregon.
Download or read book Thermodynamics in Biology written by Enrico Di Cera and published by Oxford University Press, USA. This book was released on 2000 with total page 250 pages. Available in PDF, EPUB and Kindle. Book excerpt: Enrico Di Cera, a rising star in biophysics, has organized a superb group of authors to write substantial chapters covering the most exciting and central issues relating to the bioenergetic aspects of proteins, nucleic acids, and their interactions. Topics covered in this book are protein and nucleic acid folding and stability, enzyme-substrate interactions, prediction of the affinity of complexes, electrostatics, and non-equilibrium aspects of protein function. The breadth of the topics covered in this book illustrates the growing importance of thermodynamic approaches in the study of biological phenomena. The book should be of wide interest to biophysicists, biochemists, and structural biologists.
Download or read book Advances in DNA Sequence specific Agents written by B.J. Chapman and published by Elsevier. This book was released on 2002-09-17 with total page 162 pages. Available in PDF, EPUB and Kindle. Book excerpt: This series encompasses design, synthesis, application, and analytical methods (including clinical and in vitro) for the study of these critical interactions. As our understanding of the genome and proteome expands, general developments in the field of DNA sequence specific interaction are likely to play an increasingly important role. Accordingly, manuscripts have been solicited from experts covering a diverse range of fields, reflecting the cross-disciplinary and dynamic nature of the series. Volume 4 describes work on the modification of DNA by AT specific anticancer drugs, DNA alkylation events which involve metabolite generation, DNA sequence recognition by two selective binders, bulged DNA microenvironments as molecular targets, DNA sequence specific binding by short peptides and the analysis of DNA-protein interactions using DNase I footprinting methodology. Features include: • Expert contributors from the Biomedical world • Emerging areas of drug design and therapeutic applications • Nucleic acid-protein interactions • Color graphics of molecular modeling analyses • New and emerging methodologies
Download or read book Classical and Geometrical Theory of Chemical and Phase Thermodynamics written by Frank Weinhold and published by John Wiley & Sons. This book was released on 2009-02-17 with total page 506 pages. Available in PDF, EPUB and Kindle. Book excerpt: Because it is grounded in math, chemical thermodynamics is often perceived as a difficult subject and many students are never fully comfortable with it. The first authoritative textbook presentation of equilibrium chemical and phase thermodynamics in a reformulated geometrical framework, Chemical and Phase Thermodynamics shows how this famously difficult subject can be accurately expressed with only elementary high-school geometry concepts. Featuring numerous suggestions for research-level extensions, this simplified alternative to standard calculus-based thermodynamics expositions is perfect for undergraduate and beginning graduate students as well as researchers.
Download or read book Molecular Driving Forces written by Ken Dill and published by Garland Science. This book was released on 2010-10-21 with total page 784 pages. Available in PDF, EPUB and Kindle. Book excerpt: Molecular Driving Forces, Second Edition E-book is an introductory statistical thermodynamics text that describes the principles and forces that drive chemical and biological processes. It demonstrates how the complex behaviors of molecules can result from a few simple physical processes, and how simple models provide surprisingly accurate insights into the workings of the molecular world. Widely adopted in its First Edition, Molecular Driving Forces is regarded by teachers and students as an accessible textbook that illuminates underlying principles and concepts. The Second Edition includes two brand new chapters: (1) "Microscopic Dynamics" introduces single molecule experiments; and (2) "Molecular Machines" considers how nanoscale machines and engines work. "The Logic of Thermodynamics" has been expanded to its own chapter and now covers heat, work, processes, pathways, and cycles. New practical applications, examples, and end-of-chapter questions are integrated throughout the revised and updated text, exploring topics in biology, environmental and energy science, and nanotechnology. Written in a clear and reader-friendly style, the book provides an excellent introduction to the subject for novices while remaining a valuable resource for experts.
Download or read book Recognition of Carbohydrates in Biological Systems Part A General Procedures written by Y. C. Lee and published by Elsevier. This book was released on 2003-09-15 with total page 667 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recognition of carbohydrates in biological systems has been gaining more and more attention in recent years. Although methodology for studying recognition has been developing, there is no volume that covers the wide area of methodology of carbohydrate recognition. This volume, Recognition of Carbohydrates in Biological Systems, Part A: General Procedures, and its companion, Volume 363, present state-of-the-art methodologies, as well as the most recent biological observations in this area. Covers the isolation/synthesis of substances used in studying interactions involving carbohydrates Discussed the methodology for measuring such interactions Biological roles for such interactions are also covered
Download or read book Thermodynamics of Biochemical Reactions written by Robert A. Alberty and published by John Wiley & Sons. This book was released on 2005-01-28 with total page 409 pages. Available in PDF, EPUB and Kindle. Book excerpt: Ein Lehr- und Handbuch der Thermodynamik biochemischer Reaktionen mit modernen Beispielen und umfangreichen Hinweisen auf die Originalliteratur. - Schwerpunkt liegt auf Stoffwechsel und enzymkatalysierten Reaktionen - Grundlagen der Thermodynamik (z. B. chemisches Gleichgewicht) werden anschaulich abgehandelt - zu den speziellen Themen gehören Reaktionen in Matrices, Komplexbildungsgleichgewichte und Ligandenbindung, Phasengleichgewichte, Redoxreaktionen, Kalorimetrie
Download or read book Biophysical Tools for Biologists written by John J. Correia and published by Academic Press. This book was released on 2011-09-21 with total page 996 pages. Available in PDF, EPUB and Kindle. Book excerpt: Driven in part by the development of genomics, proteomics, and bioinformatics as new disciplines, there has been a tremendous resurgence of interest in physical methods to investigate macromolecular structure and function in the context of living cells. This volume in Methods in Cell Biology is devoted to biophysical techniques in vitro and their applications to cellular biology. Biophysical Tools for Biologists covers methods-oriented chapters on fundamental as well as cutting-edge techniques in molecular and cellular biophysics. This book is directed toward the broad audience of cell biologists, biophysicists, pharmacologists, and molecular biologists who employ classical and modern biophysical technologies or wish to expand their expertise to include such approaches. It will also interest the biomedical and biotechnology communities for biophysical characterization of drug formulations prior to FDA approval. Describes techniques in the context of important biological problems Delineates critical steps and potential pitfalls for each method Includes full-color plates to illustrate techniques
Download or read book Computational Methods for Protein Folding Volume 120 written by Richard A. Friesner and published by John Wiley & Sons. This book was released on 2004-04-07 with total page 544 pages. Available in PDF, EPUB and Kindle. Book excerpt: Since the first attempts to model proteins on a computer began almost thirty years ago, our understanding of protein structure and dynamics has dramatically increased. Spectroscopic measurement techniques continue to improve in resolution and sensitivity, allowing a wealth of information to be obtained with regard to the kinetics of protein folding and unfolding, and complementing the detailed structural picture of the folded state. Concurrently, algorithms, software, and computational hardware have progressed to the point where both structural and kinetic problems may be studied with a fair degree of realism. Despite these advances, many major challenges remain in understanding protein folding at both the conceptual and practical levels. Computational Methods for Protein Folding seeks to illuminate recent advances in computational modeling of protein folding in a way that will be useful to physicists, chemists, and chemical physicists. Covering a broad spectrum of computational methods and practices culled from a variety of research fields, the editors present a full range of models that, together, provide a thorough and current description of all aspects of protein folding. A valuable resource for both students and professionals in the field, the book will be of value both as a cutting-edge overview of existing information and as a catalyst for inspiring new studies. Computational Methods for Protein Folding is the 120th volume in the acclaimed series Advances in Chemical Physics, a compilation of scholarly works dedicated to the dissemination of contemporary advances in chemical physics, edited by Nobel Prize-winner Ilya Prigogine.
Download or read book Stochastic Dynamics for Systems Biology written by Christian Mazza and published by CRC Press. This book was released on 2016-04-19 with total page 274 pages. Available in PDF, EPUB and Kindle. Book excerpt: Stochastic Dynamics for Systems Biology is one of the first books to provide a systematic study of the many stochastic models used in systems biology. The book shows how the mathematical models are used as technical tools for simulating biological processes and how the models lead to conceptual insights on the functioning of the cellular processing
