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: hmm4/seq/T27F6.6
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Query: T27F6.6 CE16515 status:Partially_confirmed SW:O45870 protein_id:CAB04885.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Exo_endo_phos Endonuclease/Exonuclease/phosphatase fa 114.0 2.5e-30 1
oxidored_q6 NADH ubiquinone oxidoreductase, 20 Kd s 4.4 5.4 1
IRK Inward rectifier potassium channel 2.4 4.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
oxidored_q6 1/1 197 218 .. 20 43 .. 4.4 5.4
IRK 1/1 288 299 .. 1 12 [. 2.4 4.3
Exo_endo_phos 1/1 39 325 .. 1 189 [] 114.0 2.5e-30
Alignments of top-scoring domains:
oxidored_q6: domain 1 of 1, from 197 to 218: score 4.4, E = 5.4
*->ilreiPrqaDvalVeGgVtlknae<-*
++r++ r+aDv++V+G ++ +++
T27F6.6 197 FVRHTARGADVVIVTGDLN--MEP 218
IRK: domain 1 of 1, from 288 to 299: score 2.4, E = 4.3
*->VsKdGrCNVqfk<-*
+ K+GrCNV+++
T27F6.6 288 LFKSGRCNVKLE 299
Exo_endo_phos: domain 1 of 1, from 39 to 325: score 114.0, E = 2.5e-30
*->lkvltwNvnglra.l.l...........llellr.edpDvlgLQEvk
l+v+t N+++l ++ + +++++ ++ +++++++++e +D++gLQE +
T27F6.6 39 LRVVTLNAWCLPQpWpIgstdrvhrlnkIGQYMIdELYDIVGLQELW 85
ls.e.lll.l.ll.gyy..gfgg.gggkgGvailsklpllsvilgi....
+ l+ + ++y++ +++++g ++Gv+++s+ p++s+ + +
T27F6.6 86 SYyDfVRLsEqVSsVYPyfHYFHsGFTGSGVCVFSRHPIVSTLTNRysln 135
................dli.rvistsgt.fvvvntHlpag.........d
+ ++ ++++ +++ + ++ + + ++ ++++++tHl+a +++++ +
T27F6.6 136 gfahhihrgdwfggkvVGLtEIEIDGDLrVNFYTTHLHAEydrendlylP 185
eRlaqlaelldflsf...ksdpvillGDfNarpdewds.lle.igk....
+R aq+ el +f++++ ++ d vi++GD+N p + +++l+ ++ k +
T27F6.6 186 HRTAQAFELAQFVRHtarGADVVIVTGDLNMEPCDLGFrLILsHAKlfda 235
..............................igfppTywsyrgssekkrtp
+ +++ ++++++++ + ++ ++++ ++ ++++T ++ +
T27F6.6 236 wrmshevenedsegellkfrgiakggtcdrPDNCYTKRALKN----VDDS 281
srlDrilvsg.ll.rvvsl.ille.......vlgSDHrPvlatl<-*
+r+D++l+++++++ + ++++ +++++ SDH ++a++
T27F6.6 282 KRIDYMLFKSgRCnVKLEEcEITLnqipgedLNYSDHVGLRARF 325