Instructors: Jane and David Richardson

dcrjsr@kinemage.biochem.duke.edu

TA: Christopher Williams, christopher.sci.williams@gmail.com

This is a seminar/lab course in the 3D structure of macromolecules, primarily using computer graphics. Class time, on Zoom, is Friday afternoons at 3:30 to 5:30, for discussion, reports on projects, lectures and demos, etc.

For the first half of the course each week there is a homework exercise, primarily working with kinemages and the KiNG display program on Mac, Windows, or Linux. For the second half of the course students will work on individual projects.

Assistance with the exercises, software, or concepts is available from Jane, Dave, or Christopher either in class, by email, or if complex by an extra Zoom.

The course web site contains the exercises, kinemage files, and other information. The site can be reached directly at http://kinemage.biochem.duke.edu/teaching/BCH622/.

General references for course

J. S. Richardson (1981) "The Anatomy and Taxonomy of Protein Structure", Adv. Prot. Chem. 34, pp. 167-339.

This document is available in an online version, annotated and considerably updated from the original. Very thorough although old, and no nucleic acids. Its approach is generic and visual/geometrical.

A. Liljas, L. Liljas, J. Piskur, G. Lindblom, P. Nissen, M. Kjeldgaard, 2nd edition (2017) Textbook of Structural Biology, World Scientific Publ. Co.

Available on Amazon, to rent for the semester, or on Kindle. It lets you read the first 3 chapters as a free "peek". Good, brief intro to nucleic acids as well as proteins, from the perspective of a chemistry background, plus structure/function examples. No experimental methodology.

The initial lessons will refer to Anatomy & Taxonomy - for the first week, read the Background section (I.) of the on-line version, and also chapter 1 of the Liljas textbook. Either of these references constitute a background resource in which to look things up over the entire semester. The amount you make use of them will depend on your type and level of background and which approach works better for you. For the first week, try both, to check out your familiarity with basic terms and concepts of protein structure.