Chemical Kinetics and Catalysis

  1. Enzyme Catalysis
    1. Structure and Function of Enzymes
      1. Protein Structure Levels
        1. Primary Structure
          1. Secondary Structure
            1. Tertiary Structure
              1. Quaternary Structure
              2. The Active Site
                1. Structure and Microenvironment
                  1. Binding Pocket
                    1. Catalytic Residues
                    2. Substrate Specificity
                      1. Geometric Complementarity
                        1. Electronic Complementarity
                        2. Cofactors and Coenzymes
                          1. Metal Ions
                            1. Organic Cofactors
                              1. Prosthetic Groups
                            2. Models of Enzyme-Substrate Interaction
                              1. Lock-and-Key Model
                                1. Induced-Fit Model
                                  1. Transition State Stabilization
                                    1. Conformational Selection
                                    2. Michaelis-Menten Kinetics
                                      1. The Michaelis-Menten Equation
                                        1. Derivation and Assumptions
                                          1. Steady-State Approximation
                                          2. Michaelis Constant
                                            1. Interpretation and Significance
                                              1. Relationship to Binding Affinity
                                              2. Maximum Velocity
                                                1. Determination and Meaning
                                                  1. Enzyme Concentration Dependence
                                                  2. Catalytic Efficiency
                                                    1. Turnover Number
                                                      1. Specificity Constant
                                                        1. Diffusion Limit
                                                      2. Analysis of Kinetic Data
                                                        1. Lineweaver-Burk Plot
                                                          1. Double Reciprocal Plot
                                                            1. Determination of Parameters
                                                              1. Statistical Limitations
                                                              2. Eadie-Hofstee Plot
                                                                1. Hanes-Woolf Plot
                                                                  1. Direct Fitting Methods
                                                                    1. Nonlinear Regression Analysis
                                                                    2. Enzyme Inhibition
                                                                      1. Reversible Inhibition
                                                                        1. Competitive Inhibition
                                                                          1. Mechanism and Kinetic Effects
                                                                            1. Inhibition Constants
                                                                            2. Uncompetitive Inhibition
                                                                              1. Mechanism and Kinetic Effects
                                                                                1. Rare Occurrence
                                                                                2. Noncompetitive Inhibition
                                                                                  1. Mixed Inhibition
                                                                                    1. Pure Noncompetitive Inhibition
                                                                                  2. Irreversible Inhibition
                                                                                    1. Covalent Modification
                                                                                      1. Time-Dependent Inhibition
                                                                                        1. Suicide Inhibitors
                                                                                        2. Product Inhibition
                                                                                          1. Feedback Inhibition
                                                                                          2. Allosteric Regulation
                                                                                            1. Allosteric Sites
                                                                                              1. Cooperativity
                                                                                                1. Positive Cooperativity
                                                                                                  1. Negative Cooperativity
                                                                                                  2. Sigmoidal Kinetics
                                                                                                    1. Hill Equation
                                                                                                      1. Monod-Wyman-Changeux Model
                                                                                                        1. Koshland-Nemethy-Filmer Model
                                                                                                        2. Effects of Environmental Factors
                                                                                                          1. Temperature Effects
                                                                                                            1. Temperature Optima
                                                                                                              1. Denaturation
                                                                                                                1. Thermostability
                                                                                                                2. pH Effects
                                                                                                                  1. pH Optima
                                                                                                                    1. Ionization of Active Site Residues
                                                                                                                      1. pH-Rate Profiles
                                                                                                                      2. Ionic Strength Effects
                                                                                                                        1. Solvent Effects
                                                                                                                        2. Multi-Substrate Enzymes
                                                                                                                          1. Sequential Mechanisms
                                                                                                                            1. Ordered Sequential
                                                                                                                              1. Random Sequential
                                                                                                                              2. Ping-Pong Mechanisms
                                                                                                                                1. Kinetic Analysis
                                                                                                                                  1. Product Inhibition Patterns
                                                                                                                                  2. Enzyme Kinetics in Vivo
                                                                                                                                    1. Metabolic Control
                                                                                                                                      1. Flux Control Coefficients
                                                                                                                                        1. Metabolic Engineering

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                                                                                                                                      8. Heterogeneous Catalysis

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                                                                                                                                      10. Advanced Topics in Kinetics and Catalysis