title: Entropic estimate of cooperative binding of substrate on a single oligomeric enzyme: an index of cooperativity.
abstract: Here we have systematically studied the cooperative binding of substrate molecules on the active sites of a single oligomeric enzyme in a chemiostatic condition. The average number of bound substrate and the net velocity of the enzyme catalyzed reaction are studied by the formulation of stochastic master equation for the cooperative binding classified here as spatial and temporal. We have estimated the entropy production for the cooperative binding schemes based on single trajectory analysis using a kinetic Monte Carlo technique. It is found that the total as well as the medium entropy production shows the same generic diagnostic signature for detecting the cooperativity, usually characterized in terms of the net velocity of the reaction. This feature is also found to be valid for the total entropy production rate at the non-equilibrium steady state. We have introduced an index of cooperativity, C, defined in terms of the ratio of the surprisals or equivalently, the stochastic system entropy associated with the fully bound state of the cooperative and non-cooperative cases. The criteria of cooperativity in terms of C is compared with that of the Hill coefficient of some relevant experimental result and gives a microscopic insight on the mechanism of cooperative binding of substrate on a single oligomeric enzyme which is usually estimated from the macroscopic reaction rate.
authors.affiliation: S.N. Bose National Centre For Basic Sciences, Block-JD, Sector-III, Salt Lake, Kolkata 700098, India.
authors.forename: Kinshuk
authors.initials: K
authors.lastname: Banerjee
authors.forename: Biswajit
authors.initials: B
authors.lastname: Das
authors.forename: Gautam
authors.initials: G
authors.lastname: Gangopadhyay
mesh_terms: D001665:Binding Sites; D055162:Biocatalysis; D019277:Entropy; D004798:Enzymes / Q000737:chemistry* / Q000378:metabolism*; D007700:Kinetics; D009010:Monte Carlo Method
chemical_list: D004798:Enzymes