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: hmm4/seq/W02B12.2
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Query: W02B12.2 CE03762 locus:rsp-2 pre-mRNA splicing factor like protein status:Confirmed TR:Q23120 protein_id:CAA91394.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
rrm RNA recognition motif. (a.k.a. RRM, RBD, or 92.6 8.6e-26 2
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
rrm 1/2 4 67 .. 1 77 [] 58.5 9e-16
rrm 2/2 114 181 .. 1 77 [] 33.9 1.6e-08
Alignments of top-scoring domains:
rrm: domain 1 of 2, from 4 to 67: score 58.5, E = 9e-16
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
+++g Lp+ ++++d++ +F+ +G+ ++ +++ Gf
W02B12.2 4 VYIGRLPNRASDRDVEHFFRGYGKLSDVIMKN-------------GF 37
aFVeFeseedAekAlealnGkelggrklrv<-*
+FV+F +++dA++A+ +lnGkel g ++
W02B12.2 38 GFVDFQDQRDADDAVHDLNGKELCGERVIL 67
rrm: domain 2 of 2, from 114 to 181: score 33.9, E = 1.6e-08
*->lfVgNLppdvteedLkdlFskfGpi.vsikivkDhiekpketgkskG
l++ NL++ ++++d+kd+ +k G ++ + k ++ +
W02B12.2 114 LVIDNLSTRYSWQDIKDHIRKLGIEpTYSEAHK----------RNVN 150
faFVeFeseedAekAlealnGkelggrklrv<-*
+a V F+s++d +A+++l+G l+grkl++
W02B12.2 151 QAIVCFTSHDDLRDAMNKLQGEDLNGRKLKC 181