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1. The secondary structure of the protein is a helix.
2.a. Plot between LYS and LEU attached as PNG.
b. Plot between SOL and SOL attached as PNG. The SOL-SOL plot looks like the radial distribution function for a liquid, with the first peak probably corresponding to interactions between the closest water molecules.
Bonus: ii is the result of block averaging i (maybe?) ... it removes the noise associated with graph i but doesn't limit the amount of data that was collected...could be totally wrong, and I'm also not sure how many blocks/what the size of the blocks were.