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TargetP 1.1 Server


The computations required by this service are executed on the bioinformatics cloud provided by CSC (IT Center for Science Ltd) in Finland. The collaboration is a part of the effort to coordinate the activities of the Nordic ELIXIR nodes (read more).

TargetP 1.1 predicts the subcellular location of eukaryotic proteins. The location assignment is based on the predicted presence of any of the N-terminal presequences: chloroplast transit peptide (cTP), mitochondrial targeting peptide (mTP) or secretory pathway signal peptide (SP).

For the sequences predicted to contain an N-terminal presequence a potential cleavage site can also be predicted.

NOTE 1:   TargetP uses ChloroP and SignalP to predict cleavage sites for cTP and SP, respectively.

NOTE 2:   The method has been tested on A. thaliana and H. sapiens sets; see the results.

New: the paper about using TargetP and other protein subcellular localization prediction methods:

Locating proteins in the cell using TargetP, SignalP, and related tools
Olof Emanuelsson, Søren Brunak, Gunnar von Heijne, Henrik Nielsen
Nature Protocols 2, 953-971 (2007).

is now again available for download - please click here.


Instructions Output format Article abstract Data sets

SUBMISSION

Paste a single sequence or several sequences in FASTA format into the field below:

Submit a file in FASTA format directly from your local disk:

Organism group
Non-plant
Plant
Prediction scope
Perform cleavage site predictions

Cutoffs
no cutoffs; winner-takes-all (default)
specificity >0.95 (predefined set of cutoffs that yielded this specificity on the TargetP test sets)
specificity >0.90 (predefined set of cutoffs that yielded this specificity on the TargetP test sets)
define your own cutoffs (0.00 - 1.00):   cTP:   mTP:   SP:   other:

Restrictions:
At most 2,000 sequences and 200,000 amino acids per submission; each sequence not more than 4,000 amino acids.

Confidentiality:
The sequences are kept confidential and will be deleted after processing.


CITATIONS

For publication of results, please cite:

Predicting subcellular localization of proteins based on their N-terminal amino acid sequence.
Olof Emanuelsson, Henrik Nielsen, Søren Brunak and Gunnar von Heijne.
J. Mol. Biol., 300: 1005-1016, 2000.

View the abstract.

If you have used the predictions of the signal peptide cleavage sites please also cite:

Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites.
Henrik Nielsen, Jacob Engelbrecht, Søren Brunak and Gunnar von Heijne.
Protein Engineering, 10:1-6, 1997.

View the abstract.


PORTABLE VERSION

Would you prefer to run TargetP at your own site? TargetP 1.1 is available as a stand-alone software package, with the same functionality as the service above. Ready-to-ship packages exist for the most common UNIX platforms. There is a download page for academic users; other users are requested to contact CBS Software Package Manager at software@cbs.dtu.dk.


GETTING HELP

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