trying to understand pfams

[grem]

I want to download seqs of a pfam, build an hmm, and search a genome for the hmm.

The wellcome sanger site is a bit confusing to me. I can see there are 250 or so sequences total in the pfam, but it also says there are 4 different architectures. What does this mean? 4 "types" in this pfam? Does this mean I want to hmm search 4 times? Which sequences map to which architectures?

Any help appreciated.

[gprakhar]

The hmmer tool, is your best bet for searching a nucleotide sequence with a hmm model.
For a detailed appreciation of hmm model use and lot of examples please refer to the
hmmer 3 documentation

hope this helps,
--
pg