ProblemSet5

ProblemSet5 - BIOC100A Problem Set 5 1 Draw a base-triple...

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BIOC100A Problem Set # 5 1. Draw a base-triple made of adenosines with four total hydrogen bonds (show only the bases, and the positions of the glycosyl bonds). 2. The four nucleoside monophosphates can be separated from each other by electrophoresis at pH 3.5. (Electrophoresis means separation of charged molecules in an electric field based on differing charges for the different molecules.) Predict the relative mobilities of the four nucleotides with respect to the cathode and anode, starting at a position equidistant from the cathode and anode. Explain why pH 3.5 is commonly used for this separation. 3. Below is a region of electron density from tRNA X-ray crystallography experiment that holds two adenosines and one uracil. Draw the structures of the bases and their molecular interactions that fit within the density. Ribose and phosphate atom positions are already indicated. 4. Using PyMOL (or RasMol) look at the tRNA.pdb accompanying this problem-set and determine which pairs of nucleotides listed below are closer to each other in space. (In PyMOL,
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ProblemSet5 - BIOC100A Problem Set 5 1 Draw a base-triple...

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