Restriction Enzymes

doelz at urz.unibas.ch doelz at urz.unibas.ch
Thu Dec 12 02:19:12 EST 1991


In article <Dec.11.11.35.47.1991.25714 at turbo.bio.net>, shibumi at turbo.bio.net (Kenton A. Hoover) writes:
> coady at ERE.UMontreal.CA (Coady Michael) writes:
>>	Can anyone advise me on how to gain access to the databank
>>on restriction enzymes?  I only have a dumb terminal, so WAIS is out
>>of the question.

biox 8% ftp bioftp.unibas.ch
Connected to modl.unibas.ch.
220- 
 +-------------------------------------------------------------+
 |               Unauthorized use is prohibited                |   
 |    Welcome to Biocomputing Basel, "MODL", modl.unibas.ch    | 
 |    Silicon Graphics Workstation SGI 4D/320, IRIX 3.3.3      | 
 +-------------------------------------------------------------+
 
220 modl.ce.unibas.ch FTP server (IRIX version 5.46 Nov 16 1990 19:11) ready.
Name (bioftp.unibas.ch:doelz): anonymous
331 Guest login ok, send ident as password.
Password:
230- 
  ************************************************************************
  *Biocomputing,Biozentrum,Universitaet Basel,modl.unibas.ch,131.152.1.2 *
  ************************************************************************
  * This server should be used  by  molecular  biologists  in  order  to *
  * retrieve database or programs useful for molecular biology computing.* 
  * Unauthorized use is prohibited. In case of problems, contact address *
  * given in the README files, or in the PROBLEM.REPORT file.            *
  ************************************************************************
 Biological databases are in the directory '/biology/database'. The sequence
 database files are in the directory '/biology/EMBnet'. Compression programs 
 (uue/uuc, zoo) are in the '/programs' directory.
 
230 Guest login ok, access restrictions apply.
Remote system type is UNIX.
Using binary mode to transfer files.
ftp> cd biology/database
250 CWD command successful.
ftp> ls
200 PORT command successful.
150 Opening ASCII mode data connection for '/bin/ls'.
total 24
-rw-r--r--   1 154      nobody      1784 Jul  5 17:32 DATABASES.TXT
-rw-r--r--   1 154      nobody      1084 Jun 30 19:14 README
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 alu
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 ecd
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 enzyme
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 epd
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 fans_ref
drwxr-xr-x   6 154      49           512 Jul  5 17:58 fly
drwxr-xr-x   2 154      0           1024 Sep 18 17:44 gcg_codon
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 info
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 jour_tab
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 limb
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 ngdd
drwxr-xr-x   2 154      49           512 Jul  5 17:23 prosite
drwxr-xr-x   2 154      0            512 Sep 18 17:44 rebase
drwxr-xr-x   2 154      nobody       512 Sep 18 17:44 seqanalr
drwxr-xr-x   2 154      nobody       512 Sep 18 17:45 tfd
drwxr-xr-x   2 154      49           512 Jul  5 22:07 trna
226 Transfer complete.
ftp> cd enzyme
250 CWD command successful.
ftp> ls
200 PORT command successful.
150 Opening ASCII mode data connection for '/bin/ls'.
total 1562
-rw-r--r--   1 154      nobody     12316 Aug 27 17:57 enzclass.txt
-rw-r--r--   1 154      nobody     11450 Aug 27 17:57 enzuser.txt
-rw-r--r--   1 154      nobody    774884 Aug 27 18:02 enzyme.dat
226 Transfer complete.
ftp> cd ../rebase
250 CWD command successful.
ftp> ls
200 PORT command successful.
150 Opening ASCII mode data connection for '/bin/ls'.
total 385
-rw-r--r--   1 154      nobody     22541 Aug 27 17:56 resenzym.com
-rw-r--r--   1 154      nobody    106812 Aug 27 17:55 resenzym.dat
-rw-r--r--   1 154      nobody     62327 Aug 27 17:56 resenzym.ref
-rw-r--r--   1 154      nobody      4530 Aug 27 17:56 resenzym.txt
226 Transfer complete.
ftp> quit

NOTE: bioftp will move as of the 15th of january, 1992. The new tree will 
have a couple of new features:  

               Setup of the Server bioftp.unibas.ch  (> 15.Jan.1992) 
               ====================================

                                    ~/
                 +-------------------+-----------------------------+
                 |                                                 |
               biology                                         programs 
   +-------------+-----------+--------------------+      uu and zoo source code
   |                         |                    |     
   EMBnet                    cd  *NEW*         database
   |           The last EMBL CD-ROM (resources    +------------------------+
   |          permitting - drive used elsewehere)                          |
   |                                                                       |
   +-----+-------------+-----------+--------------------+                  |
         |             |           |                    |                  |
    XSwissprot         |     XEMBL.VAX_ZOO           Xembl                 |
         |             |           |                    |                  |
    +----+--+          |   zoo'ed    VAX/VMS       The contents            |
data.dir   indices.dir |   GCG / NBRF formatted    of the dir's            |
Updates to the current |   current XEMBL.ref       below containing        |
Swissprot database     |   and XEMBL.seq files     Entry code, and         |
                       |   as well as XXEMBL       title line              |
            DATABASE.ZOO                                 |                 |
The zoo'ed databases currently                           |                 |
availavle at BIOCENTER in VAX        +--------------------------+          |
/VMS and GCG/NBRF formatted          |                          |          | 
zoo files: EMBL,SWISSPROT,PIR        |                          |          |
                                   data.dir                    indices.dir |
+----+----+----+----+----+----+----+-+--+----+----+----+----+  containing  |
fun  inv  mam  org  phg  pln  pri  pro  rod  syn  una vrl vrt  indices in  |
Entries in EMBL format, *ONE PER FILE*. The files are named    EMBL format |
using the entry code as file name. NEW in the next release;                | 
extension 'dat', update to existing release, extension 'upd'.              |
                                                                           |
Variuos databases available on various other servers as well,mainly updated, 
                           but not entirely produced, by Amos Bairoch, Geneva 
                                                                           |
 +---+----+------+---+----+---+---+----+------+----+-----+--+---+----+----++
 |   |    |      |   |    |   |   |    |      |    |     |  |   |    |    |
ecd  | fans_ref  |  info  |  ngdd |  seqanalr |  enzyme  | fly  | jour_tab|
     |           |        |       |           |          |      |       trna
   prosite      tfd      alu      epd     gcg_codon    limb   rebase




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