Secondary Structure and Molecular Modeling - Feb 19

Focus
Most of this material is review. In this class we will focus on
  • understanding phi and psi
  • relationship between phi and psi and structure
  • using the Ramachandran plot
  • working with the molecular modeling program to visualize structure

Reading (to be completed before class!)

Lehninger 7th ed (required review)
Chapter 4: Sections 1-3, pages 115-143

Supplemental Reading
Berg Biochemistry Chp 3: 3.2 (May help with torsion angles,
cis and trans peptide bonds, and the Ramachandran plot.)

Pre-Assignment

 

Problems

  • Lehninger 7th ed
    Chapter 4: 1, 4, 6, 7, 10, 13, 16
  • Voet 4th ed
    Chp 8: 2, 4
  • Begin to Browse the resources available a ExPASy*
    • Expert Protein Analysis System,
    • Molecular Biology computing tools.
    • available on Server in Geneva, Switzerland

In Class Activities

  1. In Class Activity Worksheet

- BRING your LAPTOP to CLASS
> octapeptide molecule (download)