Biochemical Thermodynamics

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

Navigate the complexities of biochemical thermodynamics with Mathematica(r) Chemical reactions are studied under the constraints of constant temperature and constant pressure; biochemical reactions are studied under the additional constraints of pH and, perhaps, pMg or free concentrations of other metal ions. As more intensive variables are specified, more thermodynamic properties of a system are defined, and the equations that represent thermodynamic properties as a function of independent variables become more complicated. This sequel to Robert Alberty's popular Thermodynamics of Biochemical Reactions describes how researchers will find Mathematica(r) a simple and elegant tool, which makes it possible to perform complex calculations that would previously have been impractical. Biochemical Thermodynamics: Applications of Mathematica(r) provides a comprehensive and rigorous treatment of biochemical thermodynamics using Mathematica(r) to practically resolve thermodynamic issues. Topics covered include: * Thermodynamics of the dissociation of weak acids * Apparent equilibrium constants * Biochemical reactions at specified temperatures and various pHs * Uses of matrices in biochemical thermodynamics * Oxidoreductase, transferase, hydrolase, and lyase reactions * Reactions at 298.15K * Thermodynamics of the binding of ligands by proteins * Calorimetry of biochemical reactions Because Mathematica(r) allows the intermingling of text and calculations, this book has been written in Mathematica(r) and includes a CD-ROM containing the entire book along with macros that help scientists and engineers solve their particular problems.

This book is dedicated to studying the thermodynamic bases of the structure-function relationship of proteins. It moves from the elementary principles of physical chemistry to the most current topics of biochemistry, including those that may be subject to some controversy. It considers thermodynamic properties related to the stability and function of proteins from the point of view of physics in a language that, without sacrificing conceptual rigor, is easy to read. Detailing the thermodynamics of protein-ligand interactions, protein naturation, allostery, oxidative phosphorylation and protein phosphorylation, the book will be of interest to students and teachers of chemistry, physics, biochemistry and biotechnology.

This inter-disciplinary guide to the thermodynamics of living organisms has been thoroughly revised and updated to provide a uniquely integrated overview of the subject. Retaining its highly readable style, it will serve as an introduction to the study of energy transformation in the life sciences and particularly as an accessible means for biology, biochemistry and bioengineering undergraduate students to acquaint themselves with the physical dimension of their subject. The emphasis throughout the text is on understanding basic concepts and developing problem-solving skills. The mathematical difficulty increases gradually by chapter, but no calculus is required. Topics covered include energy and its transformation, the First Law of Thermodynamics, Gibbs free energy, statistical thermodynamics, binding equilibria and reaction kinetics. Each chapter comprises numerous illustrative examples taken from different areas of biochemistry, as well as a broad range of exercises and references for further study.

A revised edition of the well-received thermodynamics text, this work retains the thorough coverage and excellent organization that made the first edition so popular. Now incorporates industrially relevant microcomputer programs, with which readers can perform sophisticated thermodynamic calculations, including calculations of the type they will encounter in the lab and in industry. Also provides a unified treatment of phase equilibria. Emphasis is on analysis and prediction of liquid-liquid and vapor-liquid equilibria, solubility of gases and solids in liquids, solubility of liquids and solids in gases and supercritical fluids, freezing point depressions and osmotic equilibria, as well as traditional vapor-liquid and chemical reaction equilibria. Contains many new illustrations and exercises.

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.

An accessible introduction to thermodynamics for undergraduate biology and biochemistry students.

The strong trend in the Biological Sciences towards a quantitative characterization of processes has promoted an increased use of thermo dynamic reasoning. This development arises not only from the well known power of thermodynamics to predict the direction of chemical change, but also from the realization that knowledge of quantitative thermodynamic parameters provides a deeper understanding of many biochemical problems. The present treatise is concerned primarily with building up a reliable data base, particularly ofbiothermodynamic and related quantities, such as partial specific volumes and compressibilities, which will help scientists in basic and applied research to choose correct data in a special field that may not be their own. Most chapters reflect this emphasis on data provision. However, it was also felt that the expert user deserved information on the basic methodology of data acquisition and on the criteria of data selection. Therefore all tables are preceded by a critical evaluation of the techniques as well as a survey of the pertinent studies in the corresponding areas. The surveys are usually self-consistent and provide references to further sources of data that are important but not covered in the present volume. The reader will realize that in different chapters, different symbols have be~n used for the same properties. This unfortunate situation is particularly obvious in those chapters where partial specific or molar quantities had to be introduced; however, it also occurs in those contributions concerning phase changes of macromolecules.

In this book the author presents a general formalism of nonequilibrium thermodynamics with complex information flows induced by interactions among multiple fluctuating systems. The author has generalized stochastic thermodynamics with information by using a graphical theory. Characterizing nonequilibrium dynamics by causal networks, he has obtained a novel generalization of the second law of thermodynamics with information that is applicable to quite a broad class of stochastic dynamics such as information transfer between multiple Brownian particles, an autonomous biochemical reaction, and complex dynamics with a time-delayed feedback control. This study can produce further progress in the study of Maxwell’s demon for special cases. As an application to these results, information transmission and thermodynamic dissipation in biochemical signal transduction are discussed. The findings presented here can open up a novel biophysical approach to understanding information processing in living systems.

"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.