Lab Journal - Task 3 (PAH)

Signal peptides

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 In our case there are only few differences between the runs for the whole sequence or only the N-terminal. For example for the whole sequence the NN result of P47863 gives also a YES for C and not only for max.S. <xr id="signalp"/> shows the results of the N-terminal run only.