Application of the Van Slyke-Cullen irreversible mechanism in the analysis of enzymatic progress curves

Analytical Biochemistry

Volumn 394, Issue 2, 2009, Pages 287-289

  Kuzmič, Petr ^a  

^a BioKin Ltd   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DIFFERENTIAL EQUATIONS; RATE CONSTANTS;

BEST FIT; BIMOLECULAR ASSOCIATION; CONTINUOUS ASSAY; FITTING MODEL; FLUOROGENICS; HIV-PROTEASE; MICHAELIS-MENTEN; PROGRESS CURVES;

CURVE FITTING;

PROTEINASE;

ARTICLE; COMPUTER PROGRAM; ENZYME ANALYSIS; ENZYME ASSAY; HUMAN IMMUNODEFICIENCY VIRUS; MATHEMATICAL ANALYSIS; MATHEMATICAL MODEL; MICHAELIS MENTEN KINETICS; PRIORITY JOURNAL;

EID: 69949100557     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2009.06.040     Document Type: Article

References (16)

1. Barshop B.A., Wrenn R.W., and Frieden C. Analysis of numerical methods for computer simulation of kinetic processes: development of KINSIM-a flexible, portable system. Anal. Biochem. 130 (1983) 134-145
2. Kuzmič P. Program DYNAFIT for the analysis of enzyme kinetic data: application to HIV proteinase. Anal. Biochem. 237 (1996) 260-273
3. Hoops S., Sahle S., Gauges R., Lee C., Pahle J., Simus N., Singhal M., Xu L., Mendes P., and Kummer U. COPASI, a COmplex PAthway SImulator. Bioinformatics 22 (2006) 3067-3074
4. Michaelis L., and Menten M.L. Die Kinetik der Invertinwirkung. Biochem. Zool. 49 (1913) 333-369
5. Fersht A. Structure and Mechanism in Protein Science: A Guide to Enzyme Catalysis and Protein Folding. 3rd ed. (1998), Macmillan, New York
6. Johnson K.A., Simpson Z.B., and Blom T. Global Kinetic Explorer: A new computer program for dynamic simulation and fitting of kinetic data. Anal. Biochem. 387 (2009) 20-29
7. Johnson K.A., Simpson Z.B., and Blom T. FitSpace Explorer: an algorithm to evaluate multidimensional parameter space in fitting kinetic data. Anal. Biochem. 387 (2009) 30-41
8. Cramer J., and Restle T. Pre-steady-state kinetic characterization of the DinB homologue DNA polymerase of sulfolobus solfataricus. J. Biol. Chem. 280 (2005) 40552-40558
9. Byrne G.D., and Hindmarsh A.C. Stiff ODE solvers: a review of current and coming attractions. J. Comput. Phys. 70 (1987) 1-62
10. Slyke D.D.V., and Cullen G.E. The mode of action of urease and of enzymes in general. J. Biol. Chem. 19 (1914) 141-180
11. Peranteau A.G., Kuzmič P., Angell Y., García-Echeverría C., and Rich D.H. Increase in fluorescence upon the hydrolysis of tyrosine peptides: application to proteinase assays. Anal. Biochem. 227 (1995) 242-245
12. Kuzmič P., Peranteau A.G., García-Echeverría C., and Rich D.H. Mechanical effects on the kinetics of the HIV proteinase deactivations. Biochem. Biophys. Res. Commun. 221 (1996) 313-317
13. Bates D.M., and Watts D.G. Nonlinear Regression Analysis and Its Applications (1988), John Wiley & Sons, New York
14. Watts D.G. Parameter estimates from nonlinear models. Methods Enzymol. 240 (1994) 23-36
15. Brooks I., Watts D.G., Soneson K.K., and Hensley P. Determining confidence intervals for parameters derived from analysis of equilibrium analytical ultracentrifugation data. Methods Enzymol. 240 (1994) 459-478
16. Box G.E.P., and Draper N.R. Empirical Model-Building and Response Surfaces (1987), Wiley, New York