pfam vs treefam
Why pfam families are much larger than treefam? treefam does not have families with 1000 od sequences whereas pfam has families as large as hinders of thousands sequences.
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1 Posted by Faye on 11 Apr, 2014 11:08 PM
why pfam families are much larger than treefam? Same family in pfam has many more sequences than treefam. TreeFam families are maximum of size 1000 but Pfam has families as large as hundreds of thousands.
Thanks
2 Posted by Fabian on 14 Apr, 2014 07:48 AM
Hi Faye,
thanks for your interest in TreeFam.
Pfam and TreeFam are different databases. While TreeFam tries to find all gene families of full length protein sequences, Pfam tries to identify conserved regions (e.g. domains, motifs) within those full length protein sequences.
The fact that Pfam has many larger families tells us that domains seem to be more widely conserved than full length protein sequence.
Does that make sense?
Cheers,
Fabian
Fabian closed this discussion on 14 Apr, 2014 07:48 AM.