PROSITE wais source, new version.

Dr Tan Tin Wee bchtantw at nuscc.nus.sg
Sat Feb 8 06:09:42 EST 1992


Many thanks to those who tried out the first test drive of PROSITE on
WAIS.  Initially, two source files had to be used.  I have now merged
the two so that you get all in one source file : prosite.src.  Please
delete the prosite-list.src. The old prosite.src may still be usable
but best cut out the new prosite.src and stick it in your /wais-sources
directory minus this note.  The prosite.src has been edited to include
some more information (5K now) and some hints on how to use the source
WAISly :-).   I have registered the source with think.com.

Many thanks to our early users, and to Rob Harper who tested out the 
first version, and of course to Amos Bairoch for allowing it to be
used in this way.

Hope you find it useful.

Tin Wee TAN and Derek Kiong. (bchtantw at nuscc.nus.sg)


************************* PROSITE on WAIS *****************************

-------cut out this line and all above,saving this file in /wais-sources ------
(:source 
   :version  3 
   :ip-address "137.132.3.3"
   :ip-name "solomon.technet.sg"
   :tcp-port 210
   :database-name "prosite"
   :cost 0.00 
   :cost-unit :free 
   :maintainer "waisguy at solomon.technet.sg"
   :description "
Server created with WAIS release 8 b3.1 on 
Feb  8 17:35:37 1992 by waisguy at solomon.technet.sg

The files of type dash used in the index were:
   /home/waisguy/src/prosite-db

        ######   ######     ###     ####    ####   ######  ####### 
         ##  ##   ##  ##   ## ##   ##  ##    ##    # ## #   ##   # 
         ##  ##   ##  ##  ##   ##  ###       ##      ##     ## #   
         #####    #####   ##   ##   ###      ##      ##     ####   
         ##       ## ##   ##   ##     ###    ##      ##     ## #   
         ##       ##  ##   ## ##   ##  ##    ##      ##     ##   # 
        ####     ###  ##    ###     ####    ####    ####   ####### 

             PROSITE: A DICTIONARY OF PROTEIN SITES AND PATTERNS
                                 USER MANUAL
                          Release 8.00, December 1991

  Amos Bairoch
  Medical Biochemistry Department
  Centre Medical Universitaire
  1211 Geneva 4
  Switzerland

  Telephone: (+41 22) 61 84 92
  Electronic mail address: bairoch at cgecmu51.bitnet
                        or bairoch at cmu.unige.ch

The use  of  protein  sequence  patterns  (or  motifs)  to  determine  the
function(s) of  proteins is  becoming very  rapidly one  of the  essential
tools of  sequence analysis.  This reality  has been  recognized  by  many
authors including well known  experts of   protein sequence analysis, R.F. 
Doolittle and A.M. Lesk.

PROSITE is a compilation of sites and patterns found in protein sequences.
Some of  these patterns been published in the literature, but the majority
have been developed, in the last two years, by the author. Originally this
dictionary was  conceived as part of the author's doctoral dissertation as
well as  an integral  part of  the PROSITE program in the PC/Gene sequence
analysis software  package. But,  as  many  people  have  expressed  their
interest in  this project,  we have decided to make this work available on
computer media as well as in a printed form.

If you want to refer to PROSITE in a publication you can do so by citing:

   Bairoch A.
   PROSITE: a dictionary of sites and patterns in proteins.
   Nucleic Acids Res. 19:2241-2245(1991).

This release of PROSITE  contains 530  documentation  entries  that describe
605 different patterns including:

Post-translational modifications      Electron transport proteins
Domains                               Other transport proteins
DNA or RNA associated proteins        Structural proteins
Enzymes                               Receptors
   Oxidoreductases                    Cytokines and growth factors
   Transferases                       Hormones and active peptides
   Hydrolases                         Toxins
   Lyases                             Other proteins
   Isomerases
   Ligases
   Other Enzymes

This WAIS source of the PROSITE dictionary has been created with the 
permission of Dr Amos Bairoch by Dr Tin Wee TAN, Dept of Biochemistry,
(INTERNET: bchtantw at nuscc.nus.sg BITNET: bchtantw at nusvm.bitnet) and
Dr Derek Kiong, Dept of Information Systems and Computer Science 
(isckbk at nuscc.nus.sg) National University of Singapore, Kent Ridge,
Singapore 0511, and maintained on the Singapore TECHNET Unix at
solomon.technet.sg (137.132.3.3).

Newcomers are advised to use the keywords 'PROSITE' or 'help' or
'documentation' to find out more about the PROSITE dictionary. (Please
see the section below on  'Additional Hints'.)

For a list of where you can obtain the PROSITE database, please use
the keywords 'obtain' or 'get'.

For a list of software/programs that make use of PROSITE, please use
the keywords 'software' or 'program'.

For a detailed explanation of how this source was indexed, use the
keyword 'WAISINDEX' to retrieve the entry or consult
bchtantw at nuscc.nus.sg or isckbk at nuscc.nus.sg. Comments are warmly
welcomed.

For questions relating to the content of the PROSITE dictionary,
you are requested to direct your queries to the copyright author
of PROSITE, Dr Amos Bairoch (address given above).

The entire database or entries within the database may be copied and 
redistributed freely, without advance permission, provided that its
textual content is not modified.

ADDITIONAL HINTS for getting the best out of this WAIS service.
---------------------------------------------------------------
1) Use as wide a term for an initial search. Eg if looking for
   chymotrypsin, start with protease.              
2) Be careful when using the PDOC numbers. Note that the O is not the
   same as 0.
3) Because of the indexing software, keyword chymotrypsin may not
   pick up entries without the exact word chymotrypsin, even though
   the word chymotrypsins may be present.
4) To understand the way the way the entries are structured, read the
   PROSITE documentation (keywords PROSITE documentation help).
"
)
-- 
    Tin Wee TAN, PhD.             /  INTERNET: bchtantw at nuscc.nus.sg
    Dept of Biochemistry          /  BITNET:   BCHTANTW at NUSVM
    National Univ. of Singapore   /  Tel:      772-3678
    SINGAPORE 0511                /  Fax:      779-1453

-- 
    Tin Wee TAN, PhD.             /  INTERNET: bchtantw at nuscc.nus.sg
    Dept of Biochemistry          /  BITNET:   BCHTANTW at NUSVM
    National Univ. of Singapore   /  Tel:      772-3678
    SINGAPORE 0511                /  Fax:      779-1453



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