文摘
By employing computationally intensive molecular dynamics simulations using hybrid quantum鈥搈echanical/molecular鈥搈echanical approach, we analyze here the kinetic and thermodynamic stabilities of various active site protonation states of a fully solvated class C 尾-lactamase. We report the detailed mechanism of proton transfer between catalytically important active site residues and the associated free energy barriers. In the apoenzyme, significant structural changes are associated with the proton transfer, and the orientations of active site residues are distinctly different for various protonation states. Among several propositions on the protonation state of the apoprotein, we find that the one with Tyr150 deprotonated and both Lys67 and Lys315 residues being protonated is the most stable one, both thermodynamically and kinetically. However, the equilibrium structure at room temperature is a dynamic one, with Lys315H味 delocalized between Tyr150O畏 and Lys315N味. Of great importance, the kinetic and thermodynamic stability of protonation states are significantly affected on noncovalently complexing with cephalothin, an antibiotic molecule. The equilibrium structure of the enzyme鈥搒ubstrate (precovalent) complex has a dynamic protonation state where a proton shuttles frequently between the Tyr150O畏 and Lys67N味. We examine here the genesis of the manifold change in stability at the molecular level. The importance of our observations toward understanding the reactivity of the enzyme is discussed and experimental observations are rationalized.