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/H15N14.1a
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Query: H15N14.1a CE19926 Double-stranded RNA binding motif (2 domains) status:Partially_confirmed TR:Q9U3D7 protein_id:CAB09529.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
A_deamin Adenosine-deaminase (editase) domain 549.3 2.5e-161 1
dsrm Double-stranded RNA binding motif 64.8 8.5e-17 2
HS1_rep Repeat in HS1/Cortactin 5.8 1.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
HS1_rep 1/1 10 46 .. 1 37 [] 5.8 1.5
dsrm 1/2 194 238 .. 20 74 .] 24.9 1.6e-05
dsrm 2/2 523 594 .. 1 74 [] 42.0 2.4e-10
A_deamin 1/1 665 948 .. 1 355 [] 549.3 2.5e-161
Alignments of top-scoring domains:
HS1_rep: domain 1 of 1, from 10 to 46: score 5.8, E = 1.5
*->GfGGkfGvqkdrvDksAvGfdyqekvekhesqkDysk<-*
G+G +G +d++ s +++ ++ ++ es + ++
H15N14.1a 10 GYGQAYGSGTDHTSDSTNNYNWASQWSQPESAASLAT 46
dsrm: domain 1 of 2, from 194 to 238: score 24.9, E = 1.6e-05
*->elvkeeGptPaHaprFtvevkvggktyvrktfgeGsGsSKKeAkqaA
e++++eG ++++ +++kv+g+t ++ + +KK Akq++
H15N14.1a 194 EYTEVEG----VPKKYCCTLKVNGRT------FQMESVNKKAAKQKC 230
AeaALrkL<-*
e+ +r L
H15N14.1a 231 SELVVRDL 238
dsrm: domain 2 of 2, from 523 to 594: score 42.0, E = 2.4e-10
*->pksaLqElaqkrklp..lpeYelvkeeGptP.aHaprFtvevkvggk
p +L+ + k+++++ Ye+ +p ++ +F +e+++++
H15N14.1a 523 PCALLHAMLNKQTKQkcKIAYEFKDNVPPVAgQATTTFYCECVIDET 569
tyvrktfgeGsGsSKKeAkqaAAeaALrkL<-*
G+G+SKK Ak +AA++AL+kL
H15N14.1a 570 D-----RYIGVGRSKKLAKSEAAMQALKKL 594
A_deamin: domain 1 of 1, from 665 to 948: score 549.3, E = 2.5e-161
*->algTGnkcvsGPDehislnGtvLnDcHAeIvARRglLrfLYsqLllf
a+g++++++++PD+++++nGt+L++++A+I+ARR++L++++++L+++
H15N14.1a 665 AMGSSIQYIVEPDTLSGANGTSLLHLDAIILARRAMLKAFIHELSTV 711
nsKnqatpedSIFekakeGkkllrLKpnvsFHLYiNtaPCGdAridskle
+s e+SIFek++eGk ++LKpn++++LY+N++P++++++d++++
H15N14.1a 712 DS------ECSIFEKKEEGK--AALKPNLRLVLYSNYSPPCIHAVDDAAT 753
sdtssneetedkHiPvfrkaRQGkLRtkienGeGTvPvaVessdavqTwD
+++s+ ++++++++vP +d+++ ++
H15N14.1a 754 KKLSY----------------------VTPTNLTCVP-----DDVLT-YE 775
GIllGeRLrTMSCSDKllRWNVLGvQGALLSHfIePvYlsSIlvGdesLn
+I+++++Lr+++++DKl++WN+LG+QGALLS++++P+++++I++G+e+++
H15N14.1a 776 QIKETKSLRVHCTADKLFKWNTLGIQGALLSNVLHPIFIDNIFFGSEAPV 825
stehLtrAicgRversGeAliskLPapYhvNrPeiglVsvadpeRqtgka
s+e+L++A++gR+++ ++N++ei+++s+++++R+++++
H15N14.1a 826 SDESLSYALQGRLGP-------------NENEREIIVESMPVQMRMHMGI 862
khltisSvNWalGDdslEvvdgttGkvsggsleksdlstpSRlCKaamfe
+hl W++G+ds+E++d++tG++s+gs pSR+CKa++fe
H15N14.1a 863 SHL------WHRGVDSVETLDYNTGRTSKGS--------PSRVCKAEIFE 898
lfrkLcgeLrtrvdlevltdsmYgeaKamaseYQtAKkqffkaLqqaGLG
++rkL+g vd++v++ Y++aK+maseYQ++Kk+f+++L++aGLG
H15N14.1a 899 AYRKLNG-----VDQAVVN---YAKAKEMASEYQYEKKVFYEKLEAAGLG 940
sWirKPpE<-*
+W++KP+E
H15N14.1a 941 KWQTKPAE 948