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: hmm5/seq/Y54G9A.3
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Query: Y54G9A.3 CE19231 locus:kqt-3 Ion transport proteins status:Partially_confirmed TR:Q9XWG9 protein_id:CAA21699.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
KCNQ_channel KCNQ voltage-gated potassium channel 153.2 6e-43 1
ion_trans Ion transport protein 85.3 5.6e-22 1
IQ IQ calmodulin-binding motif 9.7 0.87 2
PS_pyruv_trans Polysaccharide pyruvyl transferase 7.8 0.26 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ion_trans 1/1 52 325 .. 1 228 [] 85.3 5.6e-22
IQ 1/2 347 367 .. 1 21 [] 13.6 0.065
IQ 2/2 489 509 .. 1 21 [] -3.0 3.4e+03
PS_pyruv_trans 1/1 501 546 .. 367 412 .] 7.8 0.26
KCNQ_channel 1/1 479 583 .. 86 192 .. 153.2 6e-43
Alignments of top-scoring domains:
ion_trans: domain 1 of 1, from 52 to 325: score 85.3, E = 5.6e-22
*->ileildyvftviFtlEmllkiialgfklhsriprkYlrspwnilDfl
+l+il++v +v+F +E++++++++g++ kY++ +
Y54G9A.3 52 LLYILEIVLVVFFSVEFIVRLWSAGCR------SKYIGVYGR--LKF 90
vvlpslislilflsgggsv.kl.ir.l.......................
v p +li ++ g+++++ ir++ ++++++ ++++ +++ + +++
Y54G9A.3 91 VRKPI--TLIGRF---GGRhLQlIRdMlrhggpsfcgkrdagdtvsadse 135
...res.l.flalse.vsygilsvlrllRllRvLRllrllrrapglf.e.
+ +r+s ++ ++ + + + ++++l + +++ + + ++ ++
Y54G9A.3 136 dapRRSaGwHMVEIRiSKIPKIEIFKSLKIG----IFKNFANWNFQQfRk 181
..................................fe.lrtlG.Wklqslg
+ ++ +++ ++ + ++ ++++++++ + + f++l +l+++ + lg
Y54G9A.3 182 lefskilkknlagrvhywgsatpssgpdpldvgcFPkLHQLAsF-RRLLG 230
.rslkslfnlllllllllfifaiigvqlfggelnkccnpingntnFdnfg
++ ++ +l+ l + +++ ++ +++++ +e+++ +++g+ F+++
Y54G9A.3 231 sVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDHI--GVDGRQAFTSYA 278
eaflwlFqtlTteGwgdimpdtlagtvlgkiyfvifiilggflllNlfia
+a++w ++t+Tt+G+gd++p+ t+lg i++ +++ ++++ +++l+ +
Y54G9A.3 279 DALWWGVITMTTIGYGDVVPQ----TWLGRIVA-SCFSIFAISFFALPAG 323
vi<-*
++
Y54G9A.3 324 IL 325
IQ: domain 1 of 2, from 347 to 367: score 13.6, E = 0.065
*->rraaikIQaawRGylaRkryk<-*
+aa++IQ+ wR++ a k+
Y54G9A.3 347 PAAATLIQCLWRCHAAEKKVS 367
IQ: domain 2 of 2, from 489 to 509: score -3.0, E = 3.4e+03
*->rraaikIQaawRGylaRkryk<-*
+r ai+ ++++ ++aR+r++
Y54G9A.3 489 HRNAIRAIRRVKYFVARRRFQ 509
PS_pyruv_trans: domain 1 of 1, from 501 to 546: score 7.8, E = 0.26
*->yaidaeelaagpllevvldlleqllekettlskrveevrksalknf<
y+++++++++ ++++ v+d eq+++ ++ r++e+++++++
Y54G9A.3 501 YFVARRRFQQARKPYDVRDVIEQYSQGHLNMMVRIKELQRRLDQTL 546
-*
Y54G9A.3 - -
KCNQ_channel: domain 1 of 1, from 479 to 583: score 153.2, E = 6e-43
*->itHvsqLResHRvtvKviRRmqYFvAKKKFqqARKPYDvRDviEqYs
i Hv L + HR ++ iRR++YFvA+++FqqARKPYDvRDviEqYs
Y54G9A.3 479 ISHVCELTDAHRNAIRAIRRVKYFVARRRFQQARKPYDVRDVIEQYS 525
qGHLnLmvRiKELqRRLDqslGKPslFlsvsEKskDRGk.ntiGARLnRv
qGHLn+mvRiKELqRRLDq lGKP + K +G++ tiG RL R
Y54G9A.3 526 QGHLNMMVRIKELQRRLDQTLGKPGQY---DGKGSRKGHpVTIGSRLSRL 572
EeKvvqlDqkL<-*
E ++ lD k+
Y54G9A.3 573 ELQMSSLDRKV 583