Protein Sequence Anaylsis

	This progam was written by Ira W. Palmer at NIH. The program is free to any who 
wishes to use it. All data sets used by the program are from published data
or personal communication with the researchers who generated the data. In most cases
references are listed through out the program. The program was written in 
MS Visual Basic 6.0 for 32 bit systems. The program will run on Win95, 98, and NT systems.

	The program has two sequence editor windows The first is the Protein Sequence 
Editor and the second is the DNA sequence editor. Both editor can open any ascii text file.
When analysing a sequence, the user highlights a portion of the sequence with the mouse 
and then sellects the analysis to be performed. All data and results may be cut and pasted 
to any other Window application through the Window's clipboard.
A short list of functions follows.

Protein Sequence Editor

   general calculations	
	Calc           Invokes the Window's calculator
	Mol. Weight	   The periodic table in a spreadsheet 	
	A simple Periodic Table
	A280 Ext.Coff  Calculates A280 extiction Coefficent
			   based on number of Tyr, trp, and Mass
	Mass from Hydrodynamic Data
	Electrospray Mass Spec. Tools
	Protein Modification Table for Mass shifts
	Unit Conversions

  Calculations for a specific sequence
	Amino Acid Composition and hydrodynamic data
	Mass for various isotope labels
	Mass Degradation Table
	Search for a subsequence by mass
	Electric Charge vs Ph --- Isoelectric point graph
	Ultra violet spectrum estimate
	Hydrophobicity graph
	Secondary structure  - GOR Modle 1
	Circular Dichromism spectrum
	Membrane helix prediction
	Protein Cleavage with fragment analysis ( mass, pI, Hydrophobicity )
	Reverse translation with specie codon frequencies
	Alignment of two sequences 
	Post translational modification sites


DNA Sequence editor	

	Translation
	Alignment of two sequences 
	Mass and composition table
	Restriction digest ( over two hundred restriction endonucleases listed )
	Species Codon  Usage Frequency Graph

This program is free for use as is. 
If you find any bugs or other problems, please email me at pelip@helix.nih.gov