Motif confirmation by HMMer


hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm3/seq/F55D12.5
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Query:  F55D12.5  CE28566   Activin types I and II receptor domain status:Partially_confirmed TR:Q19659 protein_id:CAA99842.2

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
Activin_recp Activin types I and II receptor domain      85.7    2.3e-25   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
Activin_recp   1/1      17   112 ..     1   119 []    85.7  2.3e-25

Alignments of top-scoring domains:
Activin_recp: domain 1 of 1, from 17 to 112: score 85.7, E = 2.3e-25
                   *->lledliklpagvvlavedTapllkCyCsgccedngcnghtCetdg..
                       +++++k ++            ++C+Cs+   + +c+g++Ce +++
    F55D12.5    17    IYSASRKTSTS-----------IRCQCSTDAGGIQCHGSWCEARNna 52

                   dklaaCfvsveendggeiqyeeivskgCislnelvprgrpfeCktspkpr
                   ++laaC v+ +++++++       + +C+++ne+ +   + +C++++k++
    F55D12.5    53 THLAACAVVKVHSSSRQ-------VLACVRVNEPAE---DGYCEYDAKRN 92

                   qrvtiyieCCdtgDfCNrnltptl<-*
                     vt+  ++C+++D+CN++l++++
    F55D12.5    93 --VTK--CWCTGSDYCNVDLVDSI    112



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