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Bergethon P.R. The Physical Basis of Biochemistry: The Foundations of Molecular Biophysics

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Bergethon P.R. The Physical Basis of Biochemistry: The Foundations of Molecular Biophysics
2nd Edition. — Springer, 2010. — 960 p. — ISBN 978-1-4419-6323-9, e-ISBN 978-1-4419-6324-6
Biological chemistry has changed since the completion of the human genome project. There is a renewed interest and market for individuals trained in biophysical chemistry and molecular biophysics. The Physical Basis of Biochemistry, Second Edition, emphasizes the interdisciplinary nature of biophysical chemistry by incorporating the quantitative perspective of the physical sciences without sacrificing the complexity and diversity of the biological systems, applies physical and chemical principles to the understanding of the biology of cells and explores the explosive developments in the area of genomics, and in turn, proteomics, bioinformatics, and computational and visualization technologies that have occurred in the past seven years. The book features problem sets and examples, clear illustrations, and extensive appendixes that provide additional information on related topics in mathematics, physics and chemistry.
Contents
Principles of Biophysical Inquiry
Introduction: To the Student – First Edition
Philosophy and Practice of Biophysical Study
Overview of the Biological System Under Study
Physical Thoughts, Biological Systems – The Application of Modeling Principles to Understanding Biological Systems
Probability and Statistics
Foundations
Energy and Force – The Prime Observables
Biophysical Forces in Molecular Systems
Physical Principles: Quantum Mechanics
Chemical Principles
Measuring the Energy of a System: Energetics and the First Law of Thermodynamics
Entropy and the Second Law of Thermodynamics
Which Way Is That System Going? The Gibbs Free Energy
The Thermodynamics of Phase Equilibria
Building a Model of Biomolecular Structure
Water: A Unique Solvent and Vital Component of Life
Ion–Solvent Interactions
Ion–Ion Interactions
Lipids in Aqueous Solution
Macromolecules in Solution
Molecular Modeling – Mapping Biochemical State Space
The Electrified Interphase
Function and Action Biological State Space
Transport – A Non-equilibrium Process
Flow in a Chemical Potential Field: Diffusion
Flow in an Electric Field: Conduction
Forces Across Membranes
Kinetics – Chemical Kinetics
Dynamic Bioelectrochemistry – Charge Transfer in Biological Systems
Methods for the Measuring Structure and Function
Separation and Characterization of Biomolecules Based on Macroscopic Properties
Analysis of Molecular Structure with Electronic Spectroscopy
Molecular Structure from Scattering Phenomena
Analysis of Structure – Microscopy
Appendix A: Mathematical Methods
Appendix B: Quantum Electrodynamics
Appendix C: The Pre-Socratic Roots of Modern Science
Appendix D: The Poisson Function
Appendix E: Assumptions of a Theoretical Treatment of the Ideal Gas Law
Appendix F: The Determination of the Field from the Potential in Cartesian Coordinates
Appendix G: Geometrical Optics
Appendix H: The Compton Effect
Appendix I: Hamilton’s Principle of Least Action/Fermat’s Principle of Least Time
Appendix J: Derivation of the Energy of Interaction Between Two Ions
Appendix K: Derivation of the Statement, qrev qirrev
Appendix L: Derivation of the Clausius–Clapeyron Equation
Appendix M: Derivation of the van’t Hoff Equation for Osmotic Pressure
Appendix N: Fictitious and Pseudoforces – The Centrifugal Force
Appendix O: Derivation of the Work to Charge and Discharge a Rigid Sphere
Appendix P: Review of Circuits and Electric Current
Appendix Q: Fermi’s Golden Rule
Appendix R: The Transition from Reactant to Product: Adiabatic and Non-adiabatic Transitions
Index
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