Practice final.pdf

# Conformations are iso energetic that there is 1

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conformations are iso-energetic, that there is 1 hydrogen bond per residue, and the temperature is 298K. Hint: Total ΔG 0 will be the sum of the ΔG 0 of the solvent and the protein.

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Name: ______________________________________ UID: _________________________________ 6 4. Imagine a protein exists in 3 conformations where the energies are each separated by 1RT (you can assume here ∆U = ∆H). When crystallized the protein moves completely to the lowest energy state, calculate the ∆G of crystallization for one hypothetical protein at equilibrium.
Name: ______________________________________ UID: _________________________________ 7 5. Consider the (somewhat unusual) case of a molecule or object shaped like a square plate instead of a rod. If the dimensions of the plate are L x L x d, what is the activity coefficient in the worst case scenario (shown below) where the second plate is perpendicular to the first (remember that activity coefficient = V Tot /(V Tot -V Excl )?

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Name: ______________________________________ UID: _________________________________ 8 Problem 1. ( 30 pts ) A. A cell uses ATP hydrolysis (∆G˚ = -30 kJ/mol) to pump 2 sodium ions from inside the cell to outside the cell. Given an ATP to ADP ratio of 100, and [Pi] = 10mM, and perfect coupling between the two reactions, what will the [Na + ] out /[Na + ] in be (membrane is uncharged)? B. Now imagine the cell’s membrane has a charge of Em = -70mV. What is new the ATP- driven ratio of [Na + ] out /[Na + ] in going to be?
Name: ______________________________________ UID: _________________________________ 9 C. The cell uses the sodium ion gradient to bring glucose into the cell using a glucose/sodium ion symporter. Given the extracellular concentration of glucose is 1nM, what is the intracellular concentration of glucose going to be?

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Name: ______________________________________ UID: _________________________________ 10 Problem 2. ( 30 pts ) A. A transcription factor binds only one target binding site on the genome with a K D of 10 -5 M, which is a thousand times stronger than it binds all other DNA sequences. The genome size is 10 8 bp. If the fractional occupancy must be 0.9,
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• Summer '08
• zavodszky
• Chemistry, amino acid, transcription factor, Rate constants, _________________________________, UID

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