InterProScan (v5) to get pathway annotation

Question

[qwzhang0601]

Hello:

I am trying to get functional annotation of some protein sequences using InterProScan (v5). Briefly, I want to search the domain information, GO term and pathways. Although I add "-pa" (for pathway) in my command, I only get annotation for domain and Go terms. Does anyone have suggestions on how to get pathway annotation?

my command

interproscan.sh -appl PfamA -iprlookup -goterms -pa -f tsv -i ../proteins.fasta

Many thanks

Answer 1

[Juke34]

That seems to be correct. If you haven't seen any error message, it means that your proteins are not related to any pathway signature.