 
16 Feb 1994

The subdirectory PAPER contains a preprint of our paper entitled
"Secondary Structure Prediction from Multiple Sequence Data: Blood
Clotting Factor XIII and Yersinia Protein-Tyrosine Phosphatase" (Craig
D. Livingstone and Geoffrey J. Barton), recently accepted for
publication by the International Journal of Peptide and Protein
Research.  

We emphasise that the predictions were made *in advance* and in
ignorance of any tertiary structural data and the predicted structures
lodged with independent observers, Dr. S. H. Bryant of the NCBI,
Washington, Dr. D. Barford or Cold Spring Harbor Laboratories, and Dr
V. Yee of University of Washington, Seattle.  The last two observers
are also crytallographers working on structures of PTPase and Factor
XIII respectively.

Since space was limited in the IJPPR paper we could not include the
full alignments and justification of the secondary structure
assignments.  The subdirectory DATA contains the full alignments and
textual justification of the predictions.


FILE FORMATS:  

Files ending with .ps are PostScript.  They can be printed on a
PostScript printer, or viewed with a previewer such as GhostView.  If
you don't have a PostScript printer then get a copy of GhostScript
from an ftp site near you.  This allows the printing of PostScript
files on non-PostScript printers.  BE WARNED that the alignment files
are very large.

Files ending with .txt or .lis are just ASCII text files and can be viewed
using any text editor.


Files:

All the files below are contained in the file Everything.tar.Z.  If you can 
handle compressed tar files, then please download that file.  If not, then 
download the uncompressed files shown below.  Thank you.

README:			This File!

In the paper:
============

Paper.ps:		Postscript file containing the preprint text of the 
			IJPPR paper.


Fig1.ps:		Figure 1 from the IJPPR paper.   A summary of the 
			Factor XIIIa prediction.

Fig2.ps:		Figure 2 from the IJPPR paper.   A summary of the 
			Protein Tyrosine Phospahatase prediction.


Detailed prediction output:
==========================

progs.ps:		Detail on the programs used in the prediction of the
			Factor XIIIa and Protein Tyrosine Phospahatase 
			secondary structures.

key.ps:			A key to *both* the Factor XIIIa *and* the Protein
			Tyrosine Phospahatase prediction output.


FXIIIa.ps:		A full set of prediction results and multiple 
			alignment for the secondary structure of Factor XIIIa.

FXIIIa.txt: 		A justification for the decisions made from the 
			prediction results for the secondary
			structure of Factor XIIIa.

PTP73ALN.ps:		A full set of prediction results for the secondary
			structure of Protein Tyrosine Phospahatase.

PTPase.txt:   		A justification for the decisions made from the 
			prediction results for the secondary
			structure of Protein Tyrosine Phospahatase.

PTPase.lis:		A key to the accession numbers used in the PTPase
			alignment.

Any queries regarding this paper should be directed in the first
instance to Geoff. Barton (gjb@bioch.ox.ac.uk).



