Scherer P.O.J., Fischer S.F. Theoretical Molecular Biophysics

2nd Edition. — Springer-Verlag GmbH, Germany, 2017. — 506 p. — (Biological and Medical Physics, Biomedical Engineering) — ISBN: 3662556707.This book gives an introduction to molecular biophysics. It starts from material properties at equilibrium related to polymers, dielectrics and membranes. Electronic spectra are developed for the understanding of elementary dynamic processes in photosynthesis including proton transfer and dynamics of molecular motors. Since the molecular structures of functional groups of bio-systems were resolved, it has become feasible to develop a theory based on the quantum theory and statistical physics with emphasis on the specifics of the high complexity of bio-systems.
This introduction to molecular aspects of the field focuses on solvable models. Elementary biological processes provide as special challenge the presence of partial disorder in the structure which does not destroy the basic reproducibility of the processes. Apparently the elementary molecular processes are organized in a way to optimize the efficiency. Learning from nature by means exploring the relation between structure and function may even help to build better artificial solar cells.
The reader is exposed to basic concepts in modern biophysics, such as entropic forces, phase separation, potential of mean force, electron and proton transfer, heterogeneous reactions, coherent and incoherent energy transfer as well as molecular motors. Basic knowledge in classical and Quantum mechanics, electrostatics and statistical physics is desirable. Simplified models are presented which can be solved in limited cases analytically from the guiding lines to generate the basis for a fundamental understanding of the more complex biophysical systems. Chapters close with challenging problems whose solutions are provided at the end of the book to complete the pedagogical treatment in the book.
To the second edition several new chapters were added. The medium polarization is treated self-consistently using basic elements of polaron theory and more advanced nonlinear Schrdinger equations to describe the dynamics of solvation. Ion transport through a membrane was extended by the discussion of cooperative effects. Intramolecular transitions are now discussed in the new edition in much more detail, including also radiationless transitions. Very recent developments in spectroscopy are included, especially two-dimensional and hole-burning spectroscopy. The discussion of charge transfer processes was extended by including recent results of hole transfer in DNA in connection with the super-exchange mechanism. The chapter on molecular motors was rewritten to include the most recent developments of new models.
The book is a useful text for students and researchers wanting to go through the mathematical derivations in the theories presented. This book attracts a group of applied mathematically oriented students and scholars to the exciting field of molecular bophysics.Statistical Mechanics of Biopolymers
Random Walk Models for the Conformation
Flory–Huggins Theory for Biopolymer Solutions
Protein Electrostatics and Solvation
Implicit Continuum Solvent Models
Debye–Hückel Theory
Protonation Equilibria
Reaction Kinetics
Formal Kinetics
Kinetic Theory – Fokker-Planck Equation
Kramers Theory
Dispersive Kinetics
Transport Processes
Non-equilibrium Thermodynamics
Simple Transport Processes
Ion Transport Through a Membrane
Reaction–Diffusion Systems
Reaction Rate Theory
Equilibrium Reactions
Calculation of Reaction Rates
Marcus Theory of Electron Transfer
Elementary Photophysics
Molecular States
Intramolecular Electronic Transitions
The Displaced Harmonic Oscillator
Spectral Diffusion
Crossing of Two Electronic States
Dynamics of an Excited State
Elementary Photoinduced Processes
Photophysics of Chlorophylls and Carotenoids
Incoherent Energy Transfer
Coherent Excitations in Photosynthetic Systems
Charge Transfer in DNA
Proton Transfer in Biomolecules
Proton Coupled Coherent Charge Transfer
Molecular Motor Models
Continuous Ratchet Models
Discrete Ratchet ModelsThe Grand Canonical Ensemble
Classical Approximation of Quantum Motion
Time Correlation Function of the Displaced Harmonic Oscillator Model
Complex Cotangent Function
The Saddle Point Method