Modern Biophysical Chemistry

Introduction: What is Biophysical Chemistry? - An Example from Drug Screening

PART I: Basic Methods in Biophysical Chemistry

BASIC OPTICAL PRINCIPLES
Introduction
What Does the Electronic Structure of Molecules Look Like? Orbitals, Wave Functions and Bonding Interactions
How Does Light Interact with Molecules? Transition Densities and the Transition Dipole Moment
Absorption Spectra of Molecules in Liquid Environments. Vibrational Excitation and the Franck-Condon Principle
What Happens After Molecules have Absorbed Light? Fluorescence, Nonradiative Transitions and the Triplet State
Quantitative Description of all Processes: Quantum Efficiencies, Kinetics of Excited State Populations and the Jablonski Diagram Problems

OPTICAL PROPERTIES OF BIOMOLECULES
Introduction
Experimental Determination of Absorption and Fluorescence Spectra
Optical Properties of Proteins and DNA
Optical Properties of Important Cofactors

BASIC FLUORESCENCE TECHNQUES
Introduction
Fluorescent Labelling and Linking Techniques
Fluorescence Detection Techniques
Fluorscence Polarization Anisotropy
Förster Resonance Energy Transfer
Fluorescence Kinetics
Fluorescence Recovery after Photobleaching
Biochemiluminescence

CHIROPTICAL AND SCATTERING METHODS
Chiroptical Methods
Light Scattering
Vibrational Spectra of Biomolecules

MAGNETIC RESONANCE TECHNIQUES
Nuclear Magnetic Resonance of Biomolecules
Electron Paramagnetic Resonance

MASS SPECTROMETRY
Introduction
MALDI-TOF
ESI-MS
Structural and Sequence Analysis Using Mass Spectrometry

PART II: Advanced Methods in Biophysical Chemistry

FLUORESCENCE MICROSCOPY
Introduction
Conventional Fluorescence Microscopy
Total Internal Reflection Fluorescence Microscopy
Light-Sheet Microscopy

SUPER-RESOLUTION FLUORESCENCE MICROSCOPY
Stimulated Emission Depletion (STED) Microscopy
Photoactivated Localization Microscopy (PALM) and Stochastic Optical Reconstruction Microscopy (STORM)
3D Super-Resolution Fluorescence Microscopy
Imaging of Live Cells
Multicolour Super-Resolution Fluorescence Microscopy
Structured Illumination Microscopy
SOFI
Final Comparison

SINGLE-BIOMOLECULE TECHNIQUES
Introduction
Optical Single-Molecule Detection
Fluorescence Correlation Spectroscopy
Optical Tweezers
Atomic Force Microscopy of Biomolecules
Patch Clamping

ULTRAFAST- AND NONLINEAR SPECTROSCOPY
Introduction
Nonlinear Microscopy and Spectroscopy
Ultrafast Spectroscopy

DNA SEQUENCING AND NEXT-GENERATION SEQUENCING METHODS
Sanger Method
Next-Generation Sequencing Methods

SPECIAL TECHNIQUES
Introduction
Fluorescing Nanoparticles
Surface Plasmon Resonance Detection
DNA Origami
DNA Microarrays
Flow Cytometry
Fluorescence In Situ Hybridization
Microspheres and Nanospheres

ASSAY DEVELOPMENT, READERS AND HIGH-THROUGHPUT SCREENING
Introduction
Assay Development and Assay Quality
Microtitre Plates and Fluorescence Readers
Application Example: Drug Discovery and High-Throughput Screening

Index