
                                  findkm 
                                      
   
   
Function

   Find Km and Vmax for an enzyme reaction by a Hanes/Woolf plot
   
Description

   Takes a file of enzymatic data and plots Michaelis Menten and Hanes
   Woolf plots of the data. From these it calculates the Michaelis Menten
   constant (Km) and the maximum velocity (Vmax) of the reaction.
   
Usage

   Here is a sample session with findkm
   

% findkm -graph cps 
Find Km and Vmax for an enzyme reaction by a Hanes/Woolf plot
Enter name of file containing data: ../../data/enztest.dat
Output file [enztest.findkm]: 

Created findkm.ps
   
   Go to the input files for this example
   Go to the output files for this example
   
Command line arguments

   Mandatory qualifiers:
  [-infile]            infile     Enter name of file containing data
  [-outfile]           outfile    Output file name
   -graphlb            xygraph    Graph type

   Optional qualifiers: (none)
   Advanced qualifiers:
   -[no]plot           boolean    S/V vs S

   General qualifiers:
  -help                boolean    Report command line options. More
                                  information on associated and general
                                  qualifiers can be found with -help -verbose
   

   Mandatory qualifiers Allowed values Default
   [-infile]
   (Parameter 1) Enter name of file containing data Input file Required
   [-outfile]
   (Parameter 2) Output file name Output file <sequence>.findkm
   -graphlb Graph type EMBOSS has a list of known devices, including
   postscript, ps, hpgl, hp7470, hp7580, meta, colourps, cps, xwindows,
   x11, tektronics, tekt, tek4107t, tek, none, null, text, data, xterm,
   png EMBOSS_GRAPHICS value, or x11
   Optional qualifiers Allowed values Default
   (none)
   Advanced qualifiers Allowed values Default
   -[no]plot S/V vs S Boolean value Yes/No Yes
   
Input file format

   The input file is a file of enzymatic data, [S] against V, Substrate
   concentration against reaction velocity.
   
  Input files for usage example
  
  File: ../../data/enztest.dat
  
  0.10   2
  0.20   4
  0.50   9
  1.00  17
  2.00  29
  5.00  50
 10.00  67
 20.00  80
 50.00  91
100.00  95
   
Output file format

  Output files for usage example
  
  File: enztest.findkm
  
---Hanes Woolf Plot Calculations---
Slope of best fit line is a = 0.01
Coefficient in Eqn of line y = ma +b is b = 0.05
Where line cuts x axis = (-0.20, 0)
Where line cuts y axis = (0, 0.05)
Limit-point of graph for plot = (103.00, 1.08)

Vmax = 99.70, Km = 4.894612
   
  Graphics File: findkm.ps
  
   [findkm results]
   
Data files

   None.
   
Notes

   None.
   
References

    1. Voet & Voet (1993) 'Biochemistry'
    2. Dawes 'Quantitative Problems in Biochemistry' 5th Edition.
    3. Manuel G. Claros, Francisco M. Canovas 'Lines&Kinetics: a graphic
       tool to deal with linear regressions and enzyme kinetics.'
       EMBnet.news vol 5.1
       http://www.uk.embnet.org/embnet.news/vol5_1/kinetics.html
    4. Cornish-Bowden (1996) 'Fundamentals of Enzyme kinetics' Portland
       Press, London.
       
Warnings

   None.
   
Diagnostic Error Messages

   None.
   
Exit status

   It exits with a status of 0.
   
Known bugs

   None.
   
See also

   Program name Description
   
Author(s)

   This application was written by Sinead O'Leary
   (soleary@hgmp.mrc.ac.uk)
   
   This application was modified for inclusion in EMBOSS by David Martin
   (david.martin@biotek.uio.no) at the Norwegian EMBnet node.
   
History

   Completed November 1999
   
   Modified May 2000
   
Target users

   This program is intended to be used by everyone and everything, from
   naive users to embedded scripts.
   
Comments
