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/F55F8.3
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Query: F55F8.3 CE30542 status:Partially_confirmed SW:P91341 protein_id:AAB37807.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
WD40 WD domain, G-beta repeat 136.7 4e-37 9
PWP2 Periodic tryptophan protein 2 WD repea 79.2 6e-25 1
Heme_oxygenase Heme oxygenase 3.5 6.4 1
thaumatin Thaumatin family 1.7 1.1 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
WD40 1/9 87 114 .. 1 29 [. 0.2 3e+02
WD40 2/9 136 174 .. 1 39 [] 16.0 0.0097
WD40 3/9 180 218 .. 1 39 [] 0.6 2.2e+02
WD40 4/9 263 301 .. 1 39 [] 7.4 2.6
WD40 5/9 350 388 .. 1 39 [] 30.4 7.5e-07
WD40 6/9 392 430 .. 1 39 [] 36.2 1.7e-08
Heme_oxygenase 1/1 454 477 .. 186 209 .] 3.5 6.4
WD40 7/9 478 514 .. 1 39 [] 41.5 5.4e-10
WD40 8/9 531 554 .. 15 39 .] 0.1 3.2e+02
WD40 9/9 578 616 .. 1 39 [] 12.1 0.12
thaumatin 1/1 694 700 .. 200 206 .] 1.7 1.1
PWP2 1/1 754 870 .. 1 118 [] 79.2 6e-25
Alignments of top-scoring domains:
WD40: domain 1 of 9, from 87 to 114: score 0.2, E = 3e+02
*->geclatl.gHtspvtcvafspdsgpylasg<-*
++t++ +p+ ++ +spd +++a +
F55F8.3 87 EFKIYTFrSN-KPIGSLQWSPD-ATRVAIC 114
WD40: domain 2 of 9, from 136 to 174: score 16.0, E = 0.0097
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
++ +t++ +++ +++s d ++l+sg++D+ +++
F55F8.3 136 FSLSRTYkLSSDSLKTIDWSDD-ANLLVSGGEDRVVRVVG 174
WD40: domain 3 of 9, from 180 to 218: score 0.6, E = 2.2e+02
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
++ l H++++ + f + + +++ + g +W
F55F8.3 180 NLFIHPLaSHKGYIVNCQFMKN-SYDMITVCKRGLANVWT 218
WD40: domain 4 of 9, from 263 to 301: score 7.4, E = 2.6
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ ++ +g + vt+ +f+ + ++la++ +g i l +
F55F8.3 263 WLSESSGsGKSVDVTAARFHKE-TNILATAFNNGVIVLHE 301
WD40: domain 5 of 9, from 350 to 388: score 30.4, E = 7.5e-07
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ + ++H+ +t +spd g+++a+g +Dg++k+W+
F55F8.3 350 ESYVMKQqAHSLRITTAEYSPD-GSLMATGAEDGKVKIWN 388
WD40: domain 6 of 9, from 392 to 430: score 36.2, E = 1.7e-08
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
c+ t++ Hts+vt+v++ ++ g+ ++s+S Dgt++ d
F55F8.3 392 SFCTVTFdEHTSGVTAVKWTQS-GRAILSASLDGTVRAHD 430
Heme_oxygenase: domain 1 of 1, from 454 to 477: score 3.5, E = 6.4
*->dearervveEAndAFalNmqvfee<-*
d+a ++v+++A+++F+ ++ fe+
F55F8.3 454 DKAGDLVIAGAKEVFNIYIWSFET 477
WD40: domain 7 of 9, from 478 to 514: score 41.5, E = 5.4e-10
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
g +l +l+gH+s++++++++ + +++sgS+D+tik+W
F55F8.3 478 GHLLDILsGHESAISSIDIHGN---HIVSGSWDRTIKMWT 514
WD40: domain 8 of 9, from 531 to 554: score 0.1, E = 3.2e+02
*->cvafspdsgpylasgSrDgtiklWd<-*
+v+fsp g +a +Dg i ++
F55F8.3 531 DVKFSPA-GDEIAVLTSDGVITFFE 554
WD40: domain 9 of 9, from 578 to 616: score 12.1, E = 0.12
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ ++ + t++ t ++fspd g++l+ g++ ++ +l++
F55F8.3 578 DTITRQSaAKTKTFTRIRFSPD-GNLLLAGGESNNFCLYS 616
[output cut off at A = 10 top alignments]