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April 30th, 2024: NPS@ updated (see NEWS).

A brief introduction to PROSCAN
PROSCAN is a tool to scan a sequence against the PROSITE database. That is to say, to search for biologically relevant sites and signatures. PROSCAN allows search with errors. Errors are set by number of mismatch allowed or by a level of significant biological information.

Availability in NPS@
PROSCAN is available :

• from a dedicated page
• when you work with a sequence in NPS@

Parameters
By default the scan is made with no error.
You can include the PROSITE documentation in the result page.

NPS@ PROSCAN output example
The PROSCAN output is built in this way :

• The PROSITE reference.
• The sequence name and the database name used.
• The sequence.
• The similarity level used for the scan.
• The PROSITE sites found :
• The biological function of the pattern.
• A link on PROSITE access number.
• A link on PROSITE documentation access number.
• The pattern definition in PROSITE syntax.
• The theoretical frequency of the pattern.
• One line for each occurrence of the pattern in the sequence with the first and last residue number and the similarity level.
• The number of pattern found :
• A link on PROSCAN result text file :

References

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