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: hmm1/seq/C08B11.5
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Query: C08B11.5 CE24791 locus:sap-49 Poly(A) RNA binding protein status:Confirmed TR:Q8T8N6 protein_id:CAB60993.1
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 157.4 7.1e-45 2
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
rrm 1/2 25 96 .. 1 77 [] 74.8 1.5e-20
rrm 2/2 112 184 .. 1 77 [] 82.8 6.3e-23
Alignments of top-scoring domains:
rrm: domain 1 of 2, from 25 to 96: score 74.8, E = 1.5e-20
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
++Vg+L + v+e+ L +l+ + Gp+vs++++kD ++t ++ Gf
C08B11.5 25 IYVGGLDEKVSESILWELMVQAGPVVSVNMPKD-----RVTANHQGF 66
aFVeFeseedAekAlealnGkelggrklrv<-*
+FVeF eedA+ A++ ln ++l+g++++v
C08B11.5 67 GFVEFMGEEDADYAIKILNMIKLYGKPIKV 96
rrm: domain 2 of 2, from 112 to 184: score 82.8, E = 6.3e-23
*->lfVgNLppdvteedLkdlFskfGpivsi.kivkDhiekpketgkskG
+fVgNL p+v+e+ L+d Fs fG i+ ++ki++D g skG
C08B11.5 112 IFVGNLDPEVDEKLLYDTFSAFGVILQVpKIMRD-----VDSGTSKG 153
faFVeFeseedAekAlealnGkelggrklrv<-*
faF++F+s e+ + Alea+nG++l +r ++v
C08B11.5 154 FAFINFASFEASDTALEAMNGQFLCNRAITV 184