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: hmm2/seq/E02H1.3
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Query: E02H1.3 CE01538 Yeast DEG-1 protein homolog status:Partially_confirmed SW:Q09524 protein_id:CAA87378.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
PseudoU_synth_1 tRNA pseudouridine synthase 135.7 3.1e-41 2
TRAM TRAM domain 6.4 3.2 1
DUF695 Family of unknown function (DUF695) 0.9 8.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
DUF695 1/1 38 46 .. 244 252 .] 0.9 8.3
PseudoU_synth_1 1/2 34 161 .. 1 125 [] 45.3 6.2e-13
TRAM 1/1 209 224 .. 1 16 [. 6.4 3.2
PseudoU_synth_1 2/2 184 300 .. 1 125 [] 90.4 4.7e-27
Alignments of top-scoring domains:
DUF695: domain 1 of 1, from 38 to 46: score 0.9, E = 8.3
*->YvGWEcDai<-*
Y GWE D +
E02H1.3 38 YLGWEHDGL 46
PseudoU_synth_1: domain 1 of 2, from 34 to 161: score 45.3, E = 6.2e-13
*->aaiaYdGtHdFtGFqrqpneskstVrgilekalsriggeeernemnq
+ + Y+G+ G +qp++ + tV+ + +al++ + +e+
E02H1.3 34 IQFFYLGW-EHDGLVQQPHT-QNTVENHIMQALIKTHLIED------ 72
lvkiriigaGRTDkGVraivqvlhfvgpgklt........d.rd.n.k..
+ k++++++GRTDkGV+a q++ +v++ ++++++ +d+ ++++k +
E02H1.3 73 WTKCDFSRCGRTDKGVSAFKQTAAMVVRSLCPgdsgvfwsDsTQeHqKvd 122
.n.dippedikeaLnaklpddladirvltappevlylfharys<-*
++ +++Ln+ lp+ irv++++p v f+ar++
E02H1.3 123 yKaSGEELPYVKMLNGVLPK---TIRVFAWAP-VAQTFNARFD 161
TRAM: domain 1 of 1, from 209 to 224: score 6.4, E = 3.2
*->kryvGktqeVlveglg<-*
++yv+k++eV+ve ++
E02H1.3 209 QSYVRKVYEVKVEQVS 224
PseudoU_synth_1: domain 2 of 2, from 184 to 300: score 90.4, E = 4.7e-27
*->aaiaYdGtHdFtGFqrqpnes....kstVrgilekalsriggeeern
a +++G+HdF++F++ + ++ +s Vr ++e+++++++ ++e++
E02H1.3 184 GAELLVGEHDFSNFCQIDMNEkrllQSYVRKVYEVKVEQVSTHPEND 230
emnqlvkiriigaGRTDkGVraivqvlhfvgpgkltdrdnkndippedik
m+++v+++++g+G++++++r iv +l ++g++++ +p+ i
E02H1.3 231 -MYSMVELTVSGSGFLWHMIRYIVTILQEIGRENE---------QPSLIS 270
eaLnaklpddladirvltappevlylfharys<-*
++L+ k +++ + + a +l+lf++ y
E02H1.3 271 QLLDLKKYPS--RPQYTLASDTPLCLFDCGYK 300