Comprehensive Biophysics

Description

Biophysical research today encompasses many areas of biology. These studies do not necessarily share a unique identifying factor. This work unites the different areas of research and allows users, regardless of their background, to navigate through the most essential concepts with ease, saving them time and vastly improving their understanding.

The field of biophysics counts several journals that are directly and indirectly concerned with the field. There is no reference work that encompasses the entire field and unites the different areas of research through deep foundational reviews. Comprehensive Biophysics fills this vacuum, being a definitive work on biophysics. It will help users apply context to the diverse journal literature offering, and aid them in identifying areas for further research.

Chief Editor Edward Egelman (E-I-C, Biophysical Journal) has assembled an impressive, world-class team of Volume Editors and Contributing Authors. Each chapter has been painstakingly reviewed and checked for consistent high quality. The result is an authoritative overview which ties the literature together and provides the user with a reliable background information and citation resource.

Table of Contents

• Cantor and Schimmel - 30 Years Later
• Efficient Strategies for Production of Eukaryotic Proteins
• X-ray Crystallography: Crystallization
• Data Collection Strategies and Resources
• Phasing of X-ray Data
• Refinement of X-ray Crystal Structures
• Structure Validation and Analysis
• NMR Spectroscopy
• Solution methods
• Solid state NMR methods
• Membrane protein methods: The hybrid solution/solid-state NMR method
• Labeling techniques
• NMR Relaxation methods
• Electron microscopy
• 2D crystals
• Cryo-Electron Microscopy and Tomography of Virus Particles
• Mass spectrometry
• SAXS
• Ultrafast structural dynamics of biological systems
• Electron Magnetic Resonance
• Computing structure, dynamics, and thermodynamics of proteins
• Rapid Mixing Techniques for the Study of Enzyme Catalysis
• Other spectroscopy - UV-Vis, CD, Raman, vibrational CD applied in biophysical research
• Fluorescence and FRET: Theoretical Concepts 101
• Elucidating cellular structures
• Confocal laser scanning microscopy
• Two-photon microscopy
• Fluorescence Lifetime Microscopy
• Structured Illumination techniques
• Superresolution Microscopy
• Structure determination of macromolecular complexes by cryo-electron microscopy in vitro and in situ
• Visualizing sub-cellular organization using soft x-ray tomography
• Elucidating Cellular Structures
• Atomic Force Microscopy
• Superresolution Near-field Optical Microscopy
• Elucidating cellular structures
• CARS Microscopy
• Elucidating cellular dynamics: Quantitative Fluorescent Speckle Microscopy
• FRAP
• Fluorescence Correlation Spectroscopy
• Image Correlation Spectroscopy
• Single molecule tracking
• Protein Folding
• Combining simulation and experiment to map protein folding (overview)
• Energetics of Protein Folding
• Globular Proteins
• Fast events in protein folding
• Intermediates in protein folding
• Characterization of the denatured state
• Single Molecule Spectroscopy in Protein Folding
• Force-induced unfolding
• Protein and Nucleic Acid Folding
• Domain swapping in Proteins
• Intrinsically Disordered Proteins
• Globular Proteins
• Chaperones and protein folding
• Protein switches
• The folding of repeat proteins
• The membrane factor: biophysical studies of alpha helical transmembrane protein folding
• Nucleic Acid Folding
• Prediction of nucleic acid structure
• Effect of protein binding on RNA folding
• General Theoretical Considerations
• Actin
• Structure and Dynamic States of Actin Filaments
• Actin Filament Nucleation and Elongation
• Mechanical Properties of Actin Networks
• Microtubules
• Structure of Microtubules
• Microtubule Nucleation, Polymerization and Mechanics
• Force Generation By Dynamic Microtubule Polymers
• Myosin
• Myosin Motors: Structural Aspects and Functionality
• Kinetics of Myosin
• Single Molecule Fluorescence Techniques for Myosin
• Single Molecule Force Measurements on Myosins
• Muscle Fiber Mechanics and Force Generation
• Muscle Spectroscopy
• Thin Filament Regulation
• Smooth Muscle and Myosin Regulation
• Intracellular transport: relating single-molecule properties to in vivo function
• Non-Muscle Motility | Mitosis
• Kinesin
• Kinesin Structure & Biochemistry
• Single-molecule Mechanics
• Kinesin-related proteins: one engine, many machines
• Dynein
• Cytoplasmic Dynein: its ATPase Cycle and ATPase-dependent Structural Changes
• The Mechanics of Dynein Motility
• Axonemal Motility
• Nucleic Acid Motors
• DNA processing enzymes
• The Ribosome
• Viral Portal Motors
• Lipid Bilayers
• Lipid Bilayer Structure
• Conformational Dynamics of Lipids in Membranes
• Membrane phases and domains
• Atomic Force Microscopy and Fluorescence Microscopy
• Membrane Proteins
• Membrane Protein Structures
• Solution NMR of membrane Proteins
• AFM and EM of Membrane Proteins
• Structure and Folding of Outer Membrane Proteins
• Protein Interactions with Membranes
• Interactions of Antimicrobial Peptides with Lipid Bialyers
• Membrane Electrostatics
• Pore Forming Toxins
• Membrane Recruitment of Signaling Domains
• Supported Membranes - Structure and Interactions
• Membrane Protein-Lipid Match and Mismatch
• Membrane Conformational Transitions
• Membrane Fusion - general overview
• Mechanisms of Enveloped Virus Entry by Membrane Fusion
• Membrane Dynamics
• Single Molecule Tracking in Membranes
• Computational Methods to Model Membrane Dynamics
• Detergent interactions with lipid bilayers
• Molecular Modeling approaches to understand mechanisms in Voltage-Gated Channels
• Connexin Channels
• Structure-function correlates of Glutamate-Gated ion channels
• Gating Dynamics of the Potassium Channel Pore
• Biophysics of TRP channels
• Mechanotransduction
• Structure and mechanisms in chloride channels
• Biophysics of Ceramide Channels
• Voltage gated proton channels
• Store-operated Calcium Channels
• Bacterial Toxin channels
• Viral channels
• Structure-Function Correlates in Plant Ion Channels
• Biophysics of cell-matrix adhesion
• Biophysics of selectin-mediated cell-cell adhesions
• Biophysics of cadherin-mediated cell-cell adhesion
• Biophysics of cell division - Understanding how dividing cells change shape
• Biophysics of bacterial cell growth and division
• Biophysics of three-dimensional cell motility
• Cell microrheology
• Biophysics of nuclear organization and dynamics
• Cell-extracellular matrix mechanobiology in cancer
• Biophysics of cell motility
• Biophysics of cell developmental processes: A lasercutter’s perspective
• Biophysics of bacterial organization
• Structure and function of ATP synthase
• Structure-function relationships in P-type ATPases
• Rotational catalysis by the ATP synthase
• The Rotary Bacterial Flagellar Motor
• Electron Transfer Chains: Structures, Mechanisms and Energy Coupling
• Light capture in photosynthesis
• Photosystems of bacteria and plants
• A B C Transporters
• The mitochondrial family of transport proteins
• Bacteriorhodopsin and Related Proteins
• Transporters and Co-Transporters in Theory and Practice
• Structure function relationships in membrane transport prtotreins of the MFS and leu-T families (approximate)
• In silico approches to structure and function of cell components and their aggregates
• Coarse grained methods: Theory
• Coarse grained methods:Applications to allosteric proteins
• Coarse grained methods: Applications to membranes
• Dynamics of very large systems: the ribosome
• New Technologies for Molecular Dynamics Simulations
• Simulations of molecular machines
• Transporters
• GPCRs
• Enzymes: method advances
• MNDO-PSDCI Theory and the Excited States of Biological Chromophores
• In silico approches to structure and function of cell components and their assemblies
• Electrostatic properties
• Modeling of interaction networks in the cell
• Theory and mathematical methods
• Mathematical modeling of complex biological systems
• From genes and molecules to organs and organisms: Heart
• From genes and molecules to organs and organisms: Kidney
• From genes and molecules to organs and organisms: Immune System