Symbolic AnalysisofInitial-Rate Kinase Kinetics

Petr Kuzmic, Ph.D.
BioKin Ltd.

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Table of Contents

1. Symbolic AnalysisofInitial-Rate Kinase Kinetics
   
   
2. Difficulty of Enzyme Kinetics Algebraic Complexity
   
   
3. Steady-State Kinase Kinetics Part 1: Mechanism
   
   
4. Steady-State Kinase Kinetics Part 2: Algebraic Model
   
   
5. Steady-State Kinase Kinetics Part 2: Algebraic Model (continued)
   
   
6. Symbolic Modeling of Initial Rate Data Program DynaFit
   
   
7. Steady-State Kinase Kinetics Part 3: Symbolic Model
   
   
8. Steady-State Kinase Kinetics Part 4: Differential-Equation (DE) Model
   
   
9. Example 1: Hexokinase Inhibition by EuATP 1. Raw Data
   
   
10. Example 1: Hexokinase Inhibition by EuATP  2. Mechanism
    
    
11. Example 1: Hexokinase Inhibition by EuATP  3. Algebraic Model
    
    
12. Example 1: Hexokinase Inhibition by EuATP  4. Symbolic Model
    
    
13. Example 1: Hexokinase Inhibition by EuATP  5. Differential Equation Model
    
    
14. Example 1: Hexokinase Inhibition by EuATP  6. Results of Fit using DynaFit
    
    
15. Example 1: Hexokinase Inhibition by EuATP  6. Results of Fit (continued)
    
    
16. Example 1: Hexokinase Inhibition by EuATP  7. Comparison of Results
    
    
17. Example 1: Hexokinase Inhibition by EuATP  8. Conclusions
    
    
18. Rapid Equilibrium ApproximationQuick Summary
    
    
19. Rapid Equilibrium ApproximationExample Script
    
    
20. Example 2: p56lck Tyrosine Kinase Inhibition1. Raw Data - Peptide as Varied Substrate
    
    
21. Example 2: p56lck Tyrosine Kinase Inhibition2. Peptide Kinetics: Michaelis-Menten Model
    
    
22. Example 2: p56lck Tyrosine Kinase Inhibition3. Peptide Kinetics: Substrate Inhibition
    
    
23. Example 2: p56lck Tyrosine Kinase Inhibition4. Peptide Kinetics: Inhibition Mechanism
    
    
24. Example 2: p56lck Tyrosine Kinase Inhibition5. Peptide Kinetics: Published Mechanism
    
    
25. Example 2: p56lck Tyrosine Kinase Inhibition6. Peptide Kinetics: Comparison of Results
    
    
26. Example 2: p56lck Tyrosine Kinase Inhibition7. Peptide Kinetics: Conclusions
    
    
27. Beyond KinasesAnalysis of highly complex mechanisms
    
    
28. Example 3: Tissue Factor Pathway to Thrombin1. Symbolic Definition of Mechanism
    
    
29. Example 3: Tissue Factor Pathway to Thrombin2. Results of DynaFit Simulation
    
    
30. Example 3: Tissue Factor Pathway to Thrombin2. Results of DynaFit Simulation (contd.)
    
    
31. Example 4: Fatty-Acid Biosynthesis Assay1. Symbolic Definition of Mechanism
    
    
32. Example 4: Fatty-Acid Biosynthesis Assay2. Results of DynaFit Simulation
    
    
33. Symbolic Analysis of Initial Rate Kinetics Summary and Conclusions