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Unformatted text preview: Biophysics Fall 2011 - Homework 1 This homework requires you to download a structural viewing code. Please use VMD from the University of Illinois, available here: http://www.ks.uiuc.edu/Research/vmd/ (You will have to register for the free download). In addition, you will need to access the protein data bank (PDB) at www.rcsb.org . Also helpful is the book website: You are encouraged to work together, but each of you needs to hand in your own solution. The solution needs to be typed, not handwritten. You should hand in a print out of the solution at the beginning of the class on Wednesday. 1. Atomic level representations of biological molecules (a) Obtain coordinates for the following molecules: lambda repressor/DNA complex or Lac repressor/DNA complex. You can find the coordinates by searching the Protein Data Bank. The pdb for the lipid molecule is contained in the Zip file archive for problem 2.04 at the book website: (b) Visualize the repressor/DNA complex you chose in the following three ways: (i)...
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