ScanProsite tool
ScanProsite
This form allows you to scan proteins for matches against the PROSITE collection of motifs as well as against your own patterns.

Option 1 - Submit PROTEIN sequences to scan them against the PROSITE collection of motifs.
Option 2 - Submit MOTIFS to scan them against a PROTEIN sequence database.
Option 3 - Submit PROTEIN sequences and MOTIFS to scan them against each other.



STEP 1 - Submit PROTEIN sequences [help]

Submit PROTEIN sequences (max. 10) Examples
Submit a PROTEIN database (max. 16MB) for repeated scans (The data will be stored on our server for 1 month).


Supported input:
If you already have a code for your database, enter the code:
Otherwise, upload your database as a FASTA file to obtain a code

STEP 2 - Select options [help]

Exclude motifs with a high probability of occurrence from the scan
Exclude profiles from the scan
Run the scan at high sensitivity (show weak matches for profiles)
STEP 1 - Enter a MOTIF or a combination of MOTIFS Examples [help]


Supported input:
  • A PROSITE accession e.g. PS50240 or identifier e.g. TRYPSIN_DOM
  • Your own pattern e.g. P-x(2)-G-E-S-G(2)-[AS]
  • A combination of PROSITE accessions/identifiers e.g. PS50240 and PS50068, e.g. PS50240 and not ( PS00134 or PS00135 )
  • A combination of PROSITE accessions/identifiers and your own pattern e.g. PS50240 and P-x(2)-G-E-S-G(2)-[AS]
      » More
» Options [help]

STEP2 - Select a PROTEIN sequence database [help]

UniProtKB
      Swiss-Prot Include splice variants
      TrEMBL

PDB
Your protein database
       If you already have a code for your database, enter the code:
       Otherwise, upload your database as a FASTA file to obtain a code

Randomized UniProtKB/Swiss-Prot
[help]
      reversed
      window20

Exclude fragments (concerns UniProtKB only)
» Filters [help]
  • On length >= than:
  • On length <= than:
  • On taxonomy:   any taxonomical term e.g. Homo sapiens, e.g. Fungi; Arthropoda or corresponding TaxID e.g. 9606, e.g. 4751; 6656
  • On description: e.g. protease
  • On Tissue expression (Bgee data):
    (only on Human, Xenopus, Mouse and Zebrafish; adult stage)
    N.B. Does not consider splice variants of UniProtKB/Swiss-Prot.
STEP 1 - Submit PROTEIN sequences [help]

Submit PROTEIN sequences (max. 1'000) Examples
Submit a PROTEIN database (max. 16MB) for repeated scans (The data will be stored on our server for 1 month).


Supported input:
If you already have a code for your database, enter the code:
Otherwise, upload your database as a FASTA file to obtain a code

STEP 2 - Enter a MOTIF or a combination of MOTIFS Examples [help]


Supported input:
  • A PROSITE accession e.g. PS50240 or identifier e.g. TRYPSIN_DOM
  • Your own pattern e.g. P-x(2)-G-E-S-G(2)-[AS]
  • A combination of PROSITE accessions/identifiers e.g. PS50240 and PS50068, e.g. PS50240 and not ( PS00134 or PS00135 )
  • A combination of PROSITE accessions/identifiers and your own pattern e.g. PS50240 and P-x(2)-G-E-S-G(2)-[AS]
» More
» Options [help]
  • Profile option
  • Pattern options
    • Number of X characters in a scanned sequence that can be matched by a conserved position in a pattern:
    • Match mode:

STEP 3 - Select output options and submit your job

Output format:
Maximum number of displayed matches: If you select 100'000, results are returned by email and not all output formats are available.
Retrieve complete sequences: If you choose this option, not all output formats are available.

Receive your results by email
Email: Note that not all output formats are available for results returned by email.
Job title: If available, the job title will be included in the subject of the results email.