This is a message to all users of program DYNAFIT
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DynaFit executable files (PowerMac, DOSbox under Win31,Win95,WinNT)
were updated to version 2.16[f]. Improvements were made in the
module for automatic determination of confidence intervals for
rate constants.
An example problem was added, based on experimental data published
in [1]. This paper contains 97 differential and algebraic equations
and three mathematical appendices that describe the kinetics of
competitive binding in the system thrombin-dehydrothrombin-hirudin.
Nevertheless, this complicated formal treatment is based on several
simplifying assumptions; the fitting parameters are composite or
derived kinetic constants.
In contrast, in DYNAFIT [2] the kinetic problem is formulated simply
by using the following text:
[mechanism]
E + L <===> EL : k1 k2
F + L <===> FL : k3 k4
where E is thrombin, F is chemically modified thrombin, and L
is hirudin. The analysis is completely general, not resting on
any assumptions except the mass action law. The adjustable
parameters in the fitting model are microscopic rate constants
k1-k4, not composite or derived kinetic constants.
The executable files and the expanded test files can be
downloaded from http://www.biokin.com/dynafit/files/.
References:
[1] Wedemeyer W.J., Ashton R.W., and Scheraga H.A. (1997)
"KINETICS OF COMPETITIVE BINDING WITH APPLICATION TO
THROMBIN COMPLEXES" Anal. Biochem. 248, 130-140.
[2] Kuzmic, P. (1996) "PROGRAM DYNAFIT FOR THE ANALYSIS OF
BIOCHEMICAL DATA: APPLICATION TO HIV PROTEASE" Anal.
Biochem. 237, 260-273.
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pkuzmic at biokin.com | http://www.biokin.com | fax 608.256.1269
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Petr Kuzmic, Ph.D. * http://www.biokin.com
B i o K i n, Ltd. * P.O. Box 8336 * Madison WI 53708
voice 608..256.4790 * fax 608.256.1269
