Hi, 

I am trying to run PFAM locally. I need to download some databases from the website: ftp://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/  But there are too many files and I am not so sure which to download. All I want to do is to get the multi-domain architecture of my fungal protein sequences. Does anyone have any idea which databases I would need to download?

Thanks in advance! 
Assuming you want to run hmmer on it: ftp://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pfam-A.hmm.gz.