BCH 2333 Lecture Notes - Lecture 11: Molecular Recognition, Gibbs Free Energy, Dissociation Constant

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Molecular recognition : the ability of one molecule to recognize another through weak bonding interactions. P is free protein (or e for enzyme) L is free ligand (or s for substrate, or i for inhibitor) Meaning of k d: k d is a concentration and has units mol per liter simple unit analysis. Gives equilibrium constant for breakdown of protein ligand complex. Less obvious: k d gives the concentration of ligand that saturates 50% of the sites when the ligand concentration = the k d , half the protein is bound bound to ligand and half is free. Kd = [p l: almost all binding sites are saturated if the ligand concentration is 10 x k d, the dissociation constant is related to gibbs free energy by the relation g tln(k ) Heterogeneity: all binding sites are equivalent and not independent all binding sites are independent but not equivalent. Protein with n identical binding sites v = [p l]

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