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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm3/seq/F49D11.1
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: F49D11.1 CE28405 status:Partially_confirmed TR:O44729 protein_id:AAB96707.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
WD40 WD domain, G-beta repeat 164.0 2.5e-45 6
FliO Flagellar biosynthesis protein, FliO 6.2 1.1 1
ku Ku70/Ku80 beta-barrel domain 4.7 1.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ku 1/1 183 203 .. 215 237 .] 4.7 1.4
FliO 1/1 190 208 .. 79 99 .] 6.2 1.1
WD40 1/6 265 304 .. 1 39 [] 36.6 1.3e-08
WD40 2/6 309 347 .. 1 39 [] 32.5 1.9e-07
WD40 3/6 351 391 .. 1 39 [] 12.2 0.11
WD40 4/6 395 433 .. 1 39 [] 32.7 1.7e-07
WD40 5/6 484 524 .. 1 39 [] 23.8 5.8e-05
WD40 6/6 528 567 .] 1 39 [] 28.2 3.3e-06
Alignments of top-scoring domains:
ku: domain 1 of 1, from 183 to 203: score 4.7, E = 1.4
*->npaetdakpteeqldlakqlidk<-*
++++ kpt+e + +++++++k
F49D11.1 183 EKTVA--KPTPELQKQMDEIVKK 203
FliO: domain 1 of 1, from 190 to 208: score 6.2, E = 1.1
*->tPeFqqrLkeLlkKhdpkgKs<-*
tPe+q+++ e kK +Ks
F49D11.1 190 TPELQKQMDEIVKK--RQEKS 208
WD40: domain 1 of 6, from 265 to 304: score 36.6, E = 1.3e-08
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+++++t++gH+++v+ + + p s ++++s+S D +iklW+
F49D11.1 265 KKLVHTYrGHNKGVNFLQWFPKSAHLFLSCSMDTKIKLWE 304
WD40: domain 2 of 6, from 309 to 347: score 32.5, E = 1.9e-07
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+++t+ gH+ pv+ vaf+ + g+ ++s+S D+ +klWd
F49D11.1 309 QRVVRTYaGHKLPVREVAFNNE-GTEFLSASFDRYVKLWD 347
WD40: domain 3 of 6, from 351 to 391: score 12.2, E = 0.11
*->geclatl.gHtspvtcvafspd..sgpylasgSrDgtiklWd<-*
g++++ ++ + +c++++pd++ ++++ g +++i Wd
F49D11.1 351 GQVKQRFhTG-HVPYCLKYHPDddKNHMFLVGMQNKKIIQWD 391
WD40: domain 4 of 6, from 395 to 433: score 32.7, E = 1.7e-07
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
ge +++++ H +v+++ f +++as S+D+++++W+
F49D11.1 395 GEIVQEYdRHLQAVNSITFFDK-NRRFASTSDDKSVRIWE 433
WD40: domain 5 of 6, from 484 to 524: score 23.8, E = 5.8e-05
*->geclatl.gHtspvtcvafspd.sgpylasgSrDgtiklWd<-*
+ ++ ++gH+++ +++ ++ ++++++l+sg +Dg++ +Wd
F49D11.1 484 FSKKKAFrGHNAAGYACNIDFSpDQSFLISGDADGKLFIWD 524
WD40: domain 6 of 6, from 528 to 567: score 28.2, E = 3.3e-06
*->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
+ + ++H s++ + ++p++ ++++++++Dg ik+W+
F49D11.1 528 HKIVGKWkAHDSTCIAALWHPHEKSRMITAGWDGLIKMWN 567