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/W02B12.3
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Query: W02B12.3 CE03763 locus:rsp-1 pre-mRNA splicing factor like protein status:Confirmed TR:Q23121 protein_id:CAA91395.1
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 90.6 3.3e-25 3
XFP D-xylulose 5-phosphate/D-fructose 6-phosphat 1.2 6.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
XFP 1/1 12 27 .. 214 229 .. 1.2 6.3
rrm 1/3 5 68 .. 1 77 [] 69.8 4.5e-19
rrm 2/3 131 147 .. 1 17 [. 5.3 4.4
rrm 3/3 172 197 .. 52 77 .] 15.2 0.0052
Alignments of top-scoring domains:
XFP: domain 1 of 1, from 12 to 27: score 1.2, E = 6.3
*->aRisdeELrklFeGyG<-*
+R+s+ +++ +F+GyG
W02B12.3 12 SRVSEKDIEHFFRGYG 27
rrm: domain 1 of 3, from 5 to 68: score 69.8, E = 4.5e-19
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
+++g L+ v+e+d++ +F+ +G+i ++ +++ Gf
W02B12.3 5 IYIGRLTSRVSEKDIEHFFRGYGQIRDVLLKN-------------GF 38
aFVeFeseedAekAlealnGkelggrklrv<-*
+FVeF++++dAe+A+ +lnGkelgg ++
W02B12.3 39 GFVEFDDKRDAEDAVHDLNGKELGGERVIL 68
rrm: domain 2 of 3, from 131 to 147: score 5.3, E = 4.4
*->lfVgNLppdvteedLkd<-*
++V NL+ ++++dLkd
W02B12.3 131 VVVENLSSRISWQDLKD 147
rrm: domain 3 of 3, from 172 to 197: score 15.2, E = 0.0052
*->FeseedAekAlealnGkelggrklrv<-*
F++++d ++++e+++G+ l+grk++
W02B12.3 172 FATPSDLKRCIEKCDGMDLNGRKIKM 197