ps1 - Molecular, Cellular & Tissue Biomechanics, Fall...

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Molecular, Cellular & Tissue Biomechanics, Fall 2006 20.310/2.797J/6.024J/ Problem Set # 1 Problem 1: ATP is the $20 bill of energy units in the cell, ~20 times the thermal energy kT. When we look up the standard free energy for ATP, it is listed at 7kcal/mole. If you convert 7kcal/mole to kT units you see something is wrong, it doesn’t lead to our value of 20kT. Do this conversion. Remember we need to modify the free energy to include the typical concentrations of the reactants, ATP, and products ADP and free Phosphate. Use the fact that the free concentration of these species in a typical cell is found to be ~1mM for ATP, 10 μ m for ADP and ~1mM for phosphate to show that the “20 bucks” rule holds. Problem 2: a.) Get familiar with the protein data bank. From the books on protein structures we see that the linear distance/residues of peptides arranged in an α -helix is 1.5 Angstroms. Check this out with the protein data bank on a real structure. Download the structure 1K40, the FAT domain of Focal Adhesion Kinase. Calculate the linear distance/residue found in one of the helix structures and compare to the 1.5Angstrom
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ps1 - Molecular, Cellular & Tissue Biomechanics, Fall...

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