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/T07D4.3
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Query: T07D4.3 CE18218 locus:rha-1 ATP-dependent RNA helicase status:Partially_confirmed SW:Q22307 protein_id:CAA90409.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
dsrm Double-stranded RNA binding motif 113.6 1.3e-30 2
HA2 Helicase associated domain (HA2) 107.7 7e-29 1
helicase_C Helicase conserved C-terminal domain 65.8 3.4e-17 1
DEAD DEAD/DEAH box helicase 12.0 0.01 1
ABC_tran ABC transporter 10.5 0.068 1
FTR1 Iron permease FTR1 family 3.3 4.6 1
Viral_helicase1 Viral (Superfamily 1) RNA helicase 2.1 9.4 1
Orexin_rec2 Orexin receptor type 2 1.9 8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
dsrm 1/2 106 172 .. 1 74 [] 60.5 1.4e-15
dsrm 2/2 273 343 .. 1 74 [] 53.2 1.6e-13
Orexin_rec2 1/1 429 435 .. 55 61 .] 1.9 8
ABC_tran 1/1 498 513 .. 1 16 [. 10.5 0.068
Viral_helicase1 1/1 501 513 .. 1 13 [. 2.1 9.4
DEAD 1/1 580 640 .. 104 175 .. 12.0 0.01
helicase_C 1/1 791 879 .. 1 72 [] 65.8 3.4e-17
HA2 1/1 939 1034 .. 1 114 [] 107.7 7e-29
FTR1 1/1 1212 1231 .. 1 20 [. 3.3 4.6
Alignments of top-scoring domains:
dsrm: domain 1 of 2, from 106 to 172: score 60.5, E = 1.4e-15
*->pksaLqElaqkrklplpeYelvkeeGptPaHaprFtvevkvggktyv
k +L+ ++ k+k++ p+Y++ +e+ ++++rF++e+++ g+
T07D4.3 106 VKEFLYAWLGKNKYGNPTYDTKSETR---SGRQRFKCELRITGFG-- 147
rktfgeGsGsSKKeAkqaAAeaALrkL<-*
+ + G+ ++KK+A +AA++++++L
T07D4.3 148 --YTAFGNSTNKKDAATNAAQDFCQYL 172
dsrm: domain 2 of 2, from 273 to 343: score 53.2, E = 1.6e-13
*->pksaLqElaqkrklplpeYelvkeeGptPaHaprFtvevkvggktyv
k aL+E++qk++lp+++Y + +e + + ++ t++ +v ++
T07D4.3 273 SKKALNEFLQKMRLPQVNYGTKIRESN-TVKTMETTAQIFVPQIN-- 316
rktfgeGsGsSKKeAkqaAAeaALrkL<-*
++ +g+G+Gs+KK+++ a+A++ +r++
T07D4.3 317 KNLVGKGTGSNKKVSEAACAMNIVRQM 343
Orexin_rec2: domain 1 of 1, from 429 to 435: score 1.9, E = 8
*->AGPLqnW<-*
A PLqnW
T07D4.3 429 APPLQNW 435
ABC_tran: domain 1 of 1, from 498 to 513: score 10.5, E = 0.068
*->GevlalvGpNGaGKST<-*
+ v+ + G++G+GKST
T07D4.3 498 NRVTLIKGETGCGKST 513
Viral_helicase1: domain 1 of 1, from 501 to 513: score 2.1, E = 9.4
*->ivVhGVpGcGKSt<-*
+++ G GcGKSt
T07D4.3 501 TLIKGETGCGKST 513
DEAD: domain 1 of 1, from 580 to 640: score 12.0, E = 0.01
*->ilvaTPgrlldhlengkllekrlslknlkllVlDEADrmldmgkahg
i +T g ll ++eng l+ ++ +++DE+++ d+ + +
T07D4.3 580 IMFCTVGVLLRMMENG--------LRGISHVIIDEIHE-RDV--DTD 615
FgpdleeilsrlpknrqtllfSATl<-*
F ++ + + + ++ +++l+SAT+
T07D4.3 616 FVLIVLREMISTYRDLRVVLMSATI 640
helicase_C: domain 1 of 1, from 791 to 879: score 65.8, E = 3.4e-17
*->gikvarlhGglsqeeReeilekFrngkskvLvaTdvaarGiDipdvn
++++++lh++l+++e++++++ k+k++v+T++a+++i+i dv
T07D4.3 791 KYEILPLHSQLTSQEQRKVFNHYPG-KRKIIVSTNIAETSITIDDVV 836
lVInydl..................pwnpesyiQRiGRaGRaG<-*
+VI+ +++ +++++ + + + ++++ iQR+GRaGR+
T07D4.3 837 YVIDSCKakermytsnnnmvhfatvWASKTNVIQRRGRAGRVR 879
HA2: domain 1 of 1, from 939 to 1034: score 107.7, E = 7e-29
*->llrAlelLyaLGALDppkeekddgeLTppLGrqmaelPldPrLsKML
+++++ +L+a+GALD + eLT LG+++a++P++P ++K L
T07D4.3 939 VVESEAVLQAMGALD------RNLELTS-LGKMLARMPIEPVIAKVL 978
llaaefgCldeiltIaAmLSvqspffgrpkekkeeearadearrkdslkF
+l+ +g + ++++a+++S++ pf+ r ek+ r+ r kF
T07D4.3 979 ILGTALGAGSVMCDVASAMSFPTPFVPR--EKHH-S-RLSGTQR----KF 1020
aspsgregDehltllnv<-*
a++ +++D h+++++v
T07D4.3 1021 AGN--KFSD-HVAIVSV 1034
FTR1: domain 1 of 1, from 1212 to 1231: score 3.3, E = 4.6
*->mfaiflivlREgLEAslivS<-*
+ a +li lR++ EA l++S
T07D4.3 1212 STAAALIGLRPCIEALLVKS 1231