Hey

can u help me with getting only one representative fasta sequence per family?
Is there way to simply do that?

cheers 

X
It's not trivial. You could use the sequences from the trRosetta Pfam model set, which are representative of the family ([download link][1]).

We have a method for getting representative sequences in [our paper][2] if you are comfortable with using hmmsearch:

> A representative target sequence was found for each family using hmmsearch to search the UniRef90 database with the Pfam HMM and taking the closest subsequence match by E-value.


  [1]: http://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/structure_models
  [2]: https://www.nature.com/articles/s41467-019-11994-0