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/F47A4.3
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Query: F47A4.3 CE16059 breakpoint cluster region (BCR) protein domain status:Partially_confirmed TR:Q20498 protein_id:CAA90063.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
RhoGAP RhoGAP domain 138.9 5.6e-38 1
Orexin_rec2 Orexin receptor type 2 3.0 3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
RhoGAP 1/1 253 402 .. 1 170 [] 138.9 5.6e-38
Orexin_rec2 1/1 664 682 .. 17 35 .. 3.0 3
Alignments of top-scoring domains:
RhoGAP: domain 1 of 1, from 253 to 402: score 138.9, E = 5.6e-38
*->PiivekcveyIeklYPLaerGlqeEGIYRvsGsasrvkeLreafdkd
P ivekc Ie G+ GIYR+ G +s++++Lr++fd++
F47A4.3 253 PVIVEKCCASIED------QGIV-TGIYRQCGIQSNIQRLRAKFDSG 292
gapdslelsekewfDvhvvaglLKlYLReLPePLipydlyeefiraakeq
a+ +l+++ + +D+++v++lLK Y+R+LP+PL++y++y+++i+a ++
F47A4.3 293 -AEPDLHEFGQ--RDIYSVSSLLKQYFRQLPNPLFTYQAYPKLIEAFEK- 338
iedpderlralkellsSkLPrahynTLryLltHLnrvaeiyiensavNkM
+ e+ + l+ l+ + P ahy+T ++L++HL r+ + + +M
F47A4.3 339 EDSLSEKVESLRFSLE-TMPEAHYRTAKFLMEHLTRLCK----SKSLTDM 383
narNLAivFgPtLlrppdkesnd<-*
+ NLAiv++P+L+rpp+ +
F47A4.3 384 TSKNLAIVWSPNLFRPPP----T 402
Orexin_rec2: domain 1 of 1, from 664 to 682: score 3.0, E = 3
*->stEsRKsLttqisnFDnvs<-*
s +sR sL +s +Dnvs
F47A4.3 664 SSDSRESLHLEMSRYDNVS 682