Quick Download PDB Files

Heikki Lehvaslaiho heikki at ebi.ac.uk
Wed Jul 21 10:32:12 EST 1999

Qiao Li-An wrote:
> Hello All,
> We  can  use  SRS  method  to download a few PDB files, just click the
> search  results  one by one. But when we want to download thousands of
> protein structure PDB files, the task seems tedious.
> Now  I have a list of PDB Entry ID Code. How can I get these PDB files
> from www directly? Could I use ftp to get all of them?

Since you are using SRS to find the interesting entries in the first
place, the easiest thing to do would be to directly save the results
from SRS. Here is how to do it:

0. You probably need relatively new Netscape or IE for this. 
   Versions 4 something should work. The server I use is SRS 
   5.1.0.at EBI.

1. Before doing the query, set the chunk size to a conveniently 
   large number (e.g. 5000)

2. Do your query and press button 'Save' near the top of the 
  "QueryResult" page.

3. At the next page ("SRS:Download query"), Select view 
   'Complete entries' and mime type 'binary' before pressing 'Save'
   button. You will be presented a standard file save window for 
   naming the file.

That is all there is to it.


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     _/  _/  _/  Heikki Lehvaslaiho          heikki at ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
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  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
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