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Lecture 9 - Lecture 9 ANNOUNCEMENTS 1 Meet with any...

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Lecture 9, September 13, 2006 ANNOUNCEMENTS: 1. Meet with any interested students on Friday 9/15, 1:25– 2:15PM in Comstock B106 to discuss: “Should I apply to medical school this year? Should I apply at all!? Help!” 2. The Sunday 1 - 3 PM Rasmol review sessions in Carpenter Hall are now in the Red Room , just down the hall from the Orange. 3. Meet reps of many many grad and professional schools: Wed 9/27 Barton Hall, 11AM – 2:30PM 4. Regraded quizzes—how to get them back?! Handed in by a Wed, should be returned on that Friday along with the quiz of that week. (After, they go to the Bio Center in Stimson). Monday's lecture : Multidomain proteins (within one polypeptide chain) are common. IV structure is common. It is based upon good steric & "chemical fit" of protein surfaces. IV structure can be stable, e.g. hemoglobin, or transient, e.g. the insulin signaling complex. Thermodynamic way of looking at protein stability (folding vs unfolding) Today's lecture: First, the prof wants to clarify a word that is commonly used, but which has "jargon" usage in biochemistry: What is the meaning of "reversible" ? e.g. Mb + O 2 MbO 2 "Reversible binding" means: 2. Appreciable concentrations of both reactants and products are present at equilibrium, i.e. the rxn does not go extremely far to the left or right Oh no! multiple meanings! 1. Forward and reverse rxns occur multiple times during the observation 3. Not covalent binding
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p. 71 We can represent the relationship between the Gibbs Function and the protein structure on a graph. We use the standard state, G o , because the pressure is fixed at 1 atm and because we want concentration to be fixed : G depends on concentration, and we do not want to complicate our discussion now with this dependence. More on conc dependence of G later in the course. e The x-axis is termed "structural coordinates". What does that mean?! This is merely a crude way to indicate different structures, with close distance on this axis indicating close in structure . (There is no precise way to use one axis of a graph to indicate all the possible protein structures!).
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