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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm5/seq/Y55B1AL.3
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Y55B1AL.3 CE27019 status:Partially_confirmed TR:Q9N389 protein_id:AAF59587.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
DEAD DEAD/DEAH box helicase 63.8 1.2e-18 1
helicase_C Helicase conserved C-terminal domain 61.9 4.2e-16 1
deoR Bacterial regulatory proteins, deoR family 4.8 3.7 1
IBR IBR domain 4.1 7.2 1
SNF2_N SNF2 family N-terminal domain 3.9 4.3 1
DUF557 Protein of unknown function (DUF557) 2.9 2.6 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
deoR 1/1 278 295 .. 214 231 .] 4.8 3.7
DEAD 1/1 158 368 .. 1 207 [] 63.8 1.2e-18
IBR 1/1 396 419 .. 7 29 .. 4.1 7.2
helicase_C 1/1 466 539 .. 1 72 [] 61.9 4.2e-16
DUF557 1/1 566 572 .. 1 7 [. 2.9 2.6
SNF2_N 1/1 699 721 .. 334 356 .] 3.9 4.3
Alignments of top-scoring domains:
deoR: domain 1 of 1, from 278 to 295: score 4.8, E = 3.7
*->sslvrfgdlsqvdaiiTD<-*
+sl++ g+l++v ++++D
Y55B1AL.3 278 NSLITQGQLDRVGMVVVD 295
DEAD: domain 1 of 1, from 158 to 368: score 63.8, E = 1.2e-18
*->kalkklgfekptpiQaeai..pailegrDvlvqApTGSGKTlAfllP
k ++ k+++ Q+e+++++ +l g++++ + pTG+GKTl+++
Y55B1AL.3 158 MYRKIKKLDKFYDWQQECLsdKRLLDGENCILSLPTGAGKTLIAEVL 204
ileallkg.pqalvlaPTRELAnQiyeelkklgkgl.lrvalltgg.skk
+l ++ a+++ P + ++++ l ++++ +++ + ++ +
Y55B1AL.3 205 MLREAIVRkRNAILVLPYVAIVQEKISALA-PFEDAfGINIEEYASnKGR 253
eqrrklrkgpdilvaTPg...rlldhlengkllekrlslknlkllVlDEA
k rk++ + vaT ++ ++l+ l+ l++++++V+DE
Y55B1AL.3 254 FPPIKRRKRVSVYVATIEkanMLINSLITQ------GQLDRVGMVVVDEL 297
DrmldmgkahgFgpdleeilsr..lpknrqtllfSATlp..neverlakl
+++ d g+g +le++l++ + + q++++SATlp+ ++ +++++
Y55B1AL.3 298 HMIGDG----GRGAILEQLLAKflYKGTGQIVGMSATLPniDDLKFALRA 343
flknpvevs..vkse.ptplrikqk<-*
f++ +++++ + ++q+
Y55B1AL.3 344 FVYSTNFRPveLTEFvKIGQTMHQV 368
IBR: domain 1 of 1, from 396 to 419: score 4.1, E = 7.2
*->llesyVesnpdlkwCPa.pdCsmi<-*
ll++ +++n+ +++CP++ +C+ +
Y55B1AL.3 396 LLAKLIPKNSAVIFCPNkKNCENV 419
helicase_C: domain 1 of 1, from 466 to 539: score 61.9, E = 4.2e-16
*->gikvarlhGglsqeeReeilekFrngkskvLvaTdvaarGiDipdvn
g+ a++h+gl+q+eR+ ++++F +g + v++aT+ +a G+++p +
Y55B1AL.3 466 GV--AYHHSGLTQDERKCVEAAFMEGLIYVVCATSTLAAGVNLPVRR 510
lVInydl....pwnpesyiQRiGRaGRaG<-*
++I + +++ ++++y+Q++GRaGRaG
Y55B1AL.3 511 VIIKAPMvgreRLGKAQYLQMAGRAGRAG 539
DUF557: domain 1 of 1, from 566 to 572: score 2.9, E = 2.6
*->mVPRvMS<-*
++PR+MS
Y55B1AL.3 566 DIPRCMS 572
SNF2_N: domain 1 of 1, from 699 to 721: score 3.9, E = 4.3
*->gksrllnlimqLrKicNfHPyLf<-*
++ +ll++i+++ ++cN++ +Lf
Y55B1AL.3 699 SHFHLLFIITPYEQVCNINWDLF 721