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Motif Scan

user: GUEST

Protein Sequence Input Enter a protein sequence in RAW or FASTA or Swiss-Prot format or a db:AC or db:ID identifier examples raw format identifier FASTA format Swiss-Prot format
Motif scanning means finding all known motifs that occur in a sequence. This form lets you paste a protein sequence, select the collections of motifs to scan for, and launch the search. A document deals with the interpretation of the match scores. You should consult the home pages of Prosite on ExPASy, Pfam and InterPro for additional information. Warning: The scan might take a few minutes, thus if your proteins of interest are already in the sequence databases (see list), the Query by Protein form is much faster, and the Protein Hub provides a collection of tools that you might find useful.

Parameters
Database of motifs (db description)	perox - PeroxiBase profiles hamap - HAMAP profiles pat - PROSITE patterns freq_pat - PROSITE patterns (frequent match producers) prf - PROSITE profiles pre - More profiles pfam_fs - Pfam HMMs (local models) pfam_ls - Pfam HMMs (global models)

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