Outline of Biophysical Chemistry Part II 2000

Schedule with content and quiz

1. Study of biomolecules

1.1 General principles

1.1.1 Frequency, wavelength, energy, and wavenumber
1.1.2 Properties of electromagnetic radiation
1.1.3 Energy level and distribution

2 Sample seperation and purification

2.1 Introduction

2.2 Sedmentation

2.2.1 Sedimentation and diffusion
2.2.2 Svedberg equation

2.3 Electrophoresis

2.3.1 Electrophoresis of nucleic acids
2.3.2 SDS-gel electrophoresis of proteins

2.4 Chromotography

2.5 Mass spectroscopy

3 Microscopy (04/28)

3.1 Optical microscopy

3.2 Electron microscopy

3.2.1 Transmitting electron microscopy (TEM)
3.2.2 Scanning electron microscopy (SEM)
3.2.3 Cryo-electron microscopy & image reconstruction

4. Spectroscopy

4.1 General principles

4.1.1 Absorption
4.1.2 Emission
4.1.3 Scattering
4.1.4 Beer-Lambert's Law

4.2 Infrared (IR) spectroscopy

4.3 Ultraviolet (UV) and visable light spectroscopy

4.4 Circular dichrosim (CD)

4.4.1 Electronic CD of proteins
4.4.2 Electronic CD of nucleic acids
4.4.3 Singular value decomposition and analyzing the CD of proteins for secondary structures

4.5 Fluorescence

4.5.1 Quantum yield
4.5.2 Fluorescent groups in biomolecular system
4.5.3 Forster's rule - the molecular ruler

4.6 Nuclear magnetic resonance (NMR) spectroscopy

4.6.1 Physical properties of FT-NMR
4.6.2 Nuclear Overhauser Effect (NOE)
4.6.3 J-coupling
4.6.4 One-dimensional and multiple-dimensional NMR spectra and assignment
4.6.5 Solution structure determination

5. X-ray crystallography

5.1 Crystals

5.1.1 Symmetry and space groups
5.1.2 Growing crystalls

5.2 Theory of X-ray diffraction

5.2.1 Bragg's law
5.2.2 von Laue condition for diffraction

5.3 Solving biomolecular structures by X-ray crystallography

5.3.1 The structure factor
5.3.2 The phase problem
5.3.3 The resolution of X-ray diffraction