ScanProsite

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:

UniProtKB accessions e.g. P98073 or identifiers e.g. ENTK_HUMAN ^*
PDB identifiers e.g. 4DGJ
Sequences in FASTA format

*All UniProtKB/Swiss-Prot accessions/identifiers and all UniProtKB/TrEMBL accessions/identifiers of entries belonging to reference proteomes are accepted.

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 - 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:

UniProtKB accessions e.g. P98073 or identifiers e.g. ENTK_HUMAN ^*
PDB identifiers e.g. 4DGJ
Sequences in FASTA format

*All UniProtKB/Swiss-Prot accessions/identifiers and all UniProtKB/TrEMBL accessions/identifiers of entries belonging to reference proteomes are accepted.

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]

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» Options [ help ]

Profile option

Run the scan at a high sensitivity (show weak matches for profiles)

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.

ScanProsite tool