Lab Journal - Task 3 (PAH)

Signal peptides

Signal peptides are sequences of amino acids in a protein that determine the pathway of the protein in the cell to its destination.
On the server version 3.0 of SignalP predictions is installed. We tried two different parameters for our predictions:
First we simple run SignalP without any constraints. The only thing, which has to be stated is -t euk as all four sequences are eukaryotic. Otherwise SignalP only would accept Gran+ or Gran-. -o can be set, so the output is written automatically in output.txt or it can be set with '>'.

 signalp -t euk <UniprotID>.fasta > <UniprotID>_output.out 

In our second run we choose only the N-terminal with 70 residues as it is recommended in the manual page of SignalP to avoid false positives.

 signalp -trunc 70 -t euk <UniprotID>.fasta > <UniprotID>_trunc.out