Lectures will be held on Mondays, Wednesdays and Fridays in the Electrical Engineering Building (EEB), Room 037 , from 11:30AM-12:20PM

Lecture Schedule

Week Date Monday Wednesday Friday
1 9/24 - 9/26 No Class Forces I (DB) Forces II (DB)
2 9/29 - 10/3 Forces III (DB) Protein Dynamics I (VD) Protein Dynamics II (VD)
3 10/6 - 10/10 The RNA World I (AW) 
RNA folding movie
The RNA World II (AW)  The RNA World III (AW) 
4 10/13 - 10/17 NMR Spectroscopy I (DB) NMR Spectroscopy II (DB) Chemical Biology I (DM)
5 10/20 - 10/24 Protein Folding I (DB)  Protein Folding II (DB)  Protein Folding in vivo (DB)
6 10/27 - 10/31 Electron Microscopy (WH) Viruses (WH)  Sequence Comparison (DB)
7 11/3 - 11/7 X-Ray Crystallography I (EM) X-Ray Crystallography II (EM) X-Ray Crystallography III (EM)
8 11/10 - 11/14 X-Ray Crystallography IV (EM) Membrane Proteins (WH) Structure-Based Drug Design (WH)
9 11/17 - 11/21 Structure Prediction (DB)
Prediction movie
NMR Review Paper
10 11/24 - 11/28 Signaling and Protein Modification I (NZ) Signaling and Protein Modification II (NZ) No Class (Thanksgiving)
11 12/1 - 12/5 Protein Design (DB)
Design movie
Chemical Biology II (DM) Discussion
12 12/8 - 12/12 Exam
David Baker
Ethan Merritt
Valerie Daggett
Rachel Klevit
Wim Hol
Alan Weiner
Dustin Maly
Ning Zheng


All graded homework assignments will be returned in class.

[ Homework #1 ] Assigned 10/3, due 10/10 in class
Homework #1
Homework #1 Key

[ Homework #2 ] Assigned 10/17, due 10/24 in class
Homework #2

[ Homework #3 ] Assigned 10/24, due 10/31 in class
Homework #3

[ Homework #4 ] Assigned 11/17, due 11/24 in class
Homework #4
Homework #4 Key

[ Homework #5 ] Assigned 11/21, due 12/3 in class
Homework #5
Homework #5 Key

[ Final Exam ] Assigned 12/5, due 1pm 12/12
Final Exam
Teaching Assistant
Zibo Chen


Your final grade will be based on weekly homework assignments (60%), class participation (10%), and the final exam (30%).


tRNA-like structures tag the 3' ends of genomic RNA molecules for replication: Implications for the origin of protein synthesis

The genemic tag hypothesis: what molecular fossils tell us about the evolution of tRNA

NMR Seminar Assignment

Office Hours

Office hours are held each week in Health Sciences J-475 on Fridays from 1pm to 2pm. Please email Zibo at to make an appointment.



These books will be on reserve in the Health Sciences Library. Several of them will also be available during office hours along with other relevant texts.

Protein Physics, Alexei Finkelstein, Oleg Ptitsyn
Introduction to Protein Structure, Carl Brenden and John Tooze
Structure and Mechanism in Protein Science, Alan Fersht
Proteins: Structure and Molecular Properties, Thomas Creighton

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