Searching a sequence against protein family based HMMs

This page supports searches of protein sequence against a database of hidden Markov models (HMMs) based upon protein families. The databases are described here. The default GLOBAL search looks for matches of the full length model against the query sequence. If query sequences are potentially fragments or partial length, also try a FRAGMENT search.


Database: Scope: E-value cutoff level:
Upload a file containing a sequence OR paste it into the textbox:
(Note: If both are entered, the file will be ignored.)
Enter the name of the file containing a protein sequence in FASTA or raw format:
Enter your protein sequence in FASTA or raw sequence format:
Sequence identifier (for definition line if raw sequence entered):


The email option allows the user to be notified by email when the hmmpfam search is completed. The email will contain a link to the results. Use this option when running a lengthy search. To activate this option, check the box to the left and fill in an email address in the box to the right.
Send a link to results to email address:


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