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: hmm2/seq/D2089.1a
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Query: D2089.1a CE03111 locus:rsp-7 RNA binding protein status:Confirmed TR:O01159 protein_id:CAA85414.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
rrm RNA recognition motif. (a.k.a. RRM, RBD, 56.7 3.2e-15 2
FolB Dihydroneopterin aldolase 4.3 6.5 1
Ribosomal_L1 Ribosomal protein L1p/L10e family 1.5 7.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
rrm 1/2 12 85 .. 1 77 [] 14.7 0.0073
FolB 1/1 147 162 .. 102 117 .] 4.3 6.5
rrm 2/2 165 235 .. 1 77 [] 42.0 6.8e-11
Ribosomal_L1 1/1 249 265 .. 1 17 [. 1.5 7.9
Alignments of top-scoring domains:
rrm: domain 1 of 2, from 12 to 85: score 14.7, E = 0.0073
*->lfVgNLppdvteedLkdlFskfGpivsikivkDhiekpketgkskGf
l V N+++++t + ++ +F G+i ++k+ + e +
D2089.1a 12 LHVANISTSATRDHIYNMFNYLGKIQDLKVYP--SEGNITANTLLKT 56
aFVeFeseedAekAlealnGkelggrklrv<-*
aF++F++e+ +e A l ++++ ++ + +
D2089.1a 57 AFIKFDDERCVEVAQH-LTNTVVIDCAIVC 85
FolB: domain 1 of 1, from 147 to 162: score 4.3, E = 6.5
*->apipaelvgvsieisR<-*
+p+pa+++++++e +R
D2089.1a 147 PPLPADTDSAKVEEIR 162
rrm: domain 2 of 2, from 165 to 235: score 42.0, E = 6.8e-11
*->lfVgNLppdvteedLkdlFsk.fGpivsikivkDhiekpketgkskG
++VgNLp+ v+ ++ +lF fG+++ +++ +
D2089.1a 165 VYVGNLPKGVDGNEVLELFNMyFGEVMYARMASG------PDALPCA 205
faFVeFeseedAekAlealnGkelggrklrv<-*
+a+VeF + ++ +Al+ +G+e++ r+l++
D2089.1a 206 YAYVEFSQQASVCNALQ-NDGFEFKERPLKI 235
Ribosomal_L1: domain 1 of 1, from 249 to 265: score 1.5, E = 7.9
*->VDrsklYeaveAiellK<-*
+D+++l e++eAi++++
D2089.1a 249 TDEQALGEIEEAIRMGR 265