Cooperativity and Regulation in Biochemical Processes

Arieh Y. Ben-Naim,

Cooperativity and Regulation in Biochemical Processes
1. Introducing the Fundamental Concept. 2. The Binding Isotherm (BI). 3. Adsorption on a Single Polymer with Conformation Changes Induced by the Binding Process. 4. Two-site Systems; Direct and Indirect Cooperativity. 5. Three-site Systems; Non-additivity and Long Range Correlations. 6. 7. Large Linear Systems of Binding Sites. 8. Regulatory Enzymes. 9. Solvent Effects on Cooperativity. 10. Appendices. Appendix A: Pair and triple correlations between events. Appendix B: Localization of the adsorbent molecules, and its effect on the binding isotherm. Appendix C: Transition from microstates to macrostates. Appendix D: First order correction to non-ideality of the ligand's reservoir. Appendix E: Relative slopes of the equilibrated and 'frozen in' BI's in a multi macrostate system. Appendix F: Spurious cooperativity in single-site systems. Appendix G: The relation between the binding isotherm and the titration curves for two-site systems. Appendix H: Synthetic data. Appendix I: A comment on nomenclature. Appendix J: Average binding constants and correlation functions. Appendix K: Utility function in binding systems.

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