Swiss Pdb Viewer Deep View
ExPASy Home page Site Map Search ExPASy Contact us
Hosted by NCSC USMirror sites:Canada China Korea Switzerland Taiwan
Search for

 

 

 

Download
User Guide

  1. Files
  2. Control Panel
  3. Move & Rotate
  4. Display
  5. Rendering
  6. Tools
  7. Mutations
  8. Torsions
  9. Preferences
  10. hardware stereo
  11. electrostatics
  12. surface
  13. tips & tricks

    Index

Tips
Tutorial
Feedback
Index
Art Gallery
Mirror sites
References

 

 


by N.Guex
& T.Schwede

 

 

 

 










 

 

 

 

 

 


Scan for sequence pattern (PROSITE)

The amino acid sequence of the current layer can be searched for the occurence of specific sequence pattern, e.g. glycosylation sites etc. Use the "Find Sequence" menu to input a search pattern. The search string can be a PROSITE pattern.

It is possible to scan the current layer sequence against all prosite pattern. This routine uses the current parameters (e.g. max. number of mismathces) as specifies in the "Find Sequence" menu.
The current prosite pattern file prosite.dat can be downloaded from

http://www.expasy.ch/prosite/

Copy this file into your "spdbv/usrstuff" directory, then use the "Search for prosite pattern" function in the "Edit" menu.

The results window allows you to highlight the different pattern in the structure (by clicking on the pattern description, e.g. "THIONIN") or to download the pattern definition from the server (by clicking on the Pattern Code e.g. "PS00271").