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/F55C5.3
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Query: F55C5.3 CE11154 locus:twk-11 potassium channel protein status:Confirmed TR:Q20817 protein_id:CAB01568.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ion_trans Ion transport protein 51.4 9.1e-13 2
NCD2 NAB conserved region 2 (NCD2) 4.8 2 1
EII-Sor PTS system sorbose-specific iic component 4.7 4.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ion_trans 1/2 118 270 .. 138 225 .. 12.9 0.026
NCD2 1/1 337 361 .. 1 27 [. 4.8 2
ion_trans 2/2 366 438 .. 137 228 .] 25.6 9.2e-06
EII-Sor 1/1 421 439 .. 220 238 .] 4.7 4.4
Alignments of top-scoring domains:
ion_trans: domain 1 of 2, from 118 to 270: score 12.9, E = 0.026
*->lllllllfifaiigvqlfggelnkcc.....................
+ +l++lf f+++g +f++++ +++ ++ +++++ + +
F55C5.3 118 IAWLVVLFSFSLFGGVIFSAIEGGYEttqlikkfehekdvyerrkiy 164
................................................np
+ + +++++++ + +++ ++ + + + + ++ + + + + ++
F55C5.3 165 qeqlfqrlreiehdntnprgrnssrehfkleqsrhalewyeqkmgvtiEE 214
ingntnFdnfgeaflwlFqtlTteGwgdimpdtlagtvlgkiyfvifiil
+ + +n + +++++ + Tt+G+g+ +p t g i+ +++ ++
F55C5.3 215 PQMRETKWNLWGGVYYSASLYTTIGYGNFHPL----TKSGRIISMMYACI 260
ggflllNlfi<-*
g+ l++++++
F55C5.3 261 GIPLVFTILL 270
NCD2: domain 1 of 1, from 337 to 361: score 4.8, E = 2
*->geetesshslSPsAgvGlsaspgedvv<-*
+ es h+lSP ++v ++ + ++ v
F55C5.3 337 -QHIESNHPLSP-LDVDVPMGEQVQTV 361
ion_trans: domain 2 of 2, from 366 to 438: score 25.6, E = 9.2e-06
*->llllllllfifaiigvqlfggelnkccnpingntnFdnfgeaflwlF
+ ++++l+++++++ v l+ + +++++af++ F
F55C5.3 366 AAIFFFLWIMISAFIVRLWEY--------------EWTYFTAFYFFF 398
qtlTteGwgdimpdtlagtvlgkiyfvifiilggflllNlfiavi<-*
++lTt+G gd++ + t+ +i+ + + l+g+ ++ l+ a++
F55C5.3 399 TSLTTIGLGDVVTK----TPNFIIFN-LAMTLIGLSVVGLCAAIV 438
EII-Sor: domain 1 of 1, from 421 to 439: score 4.7, E = 4.4
*->lqlpliAigvlGvaiAliy<-*
l ++li+++v+G++ A++
F55C5.3 421 LAMTLIGLSVVGLCAAIVQ 439