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/Y74C9A.4a
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Query: Y74C9A.4a CE24662 DNA-binding protein status:Partially_confirmed TR:Q9N4D7 protein_id:AAF36052.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
myb_DNA-binding Myb-like DNA-binding domain 66.0 1.2e-16 2
ELM2 ELM2 domain 7.8 0.57 1
HALZ Homeobox associated leucine zipper 6.4 2.7 1
PBD P21-Rho-binding domain 5.6 9 1
UPF0114 Uncharacterized protein family, UPF01 3.1 5.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ELM2 1/1 106 165 .. 1 76 [] 7.8 0.57
myb_DNA-binding 1/2 190 235 .. 1 65 [] 39.3 2.9e-09
UPF0114 1/1 403 415 .. 162 175 .] 3.1 5.8
HALZ 1/1 515 534 .. 26 45 .] 6.4 2.7
myb_DNA-binding 2/2 499 541 .. 4 65 .] 26.9 8.4e-06
PBD 1/1 522 541 .. 44 64 .] 5.6 9
Alignments of top-scoring domains:
ELM2: domain 1 of 1, from 106 to 165: score 7.8, E = 0.57
*->keIrVGskyQAdvPdllketesdesderelleTkkedeekldelvWs
I VG++yQA + + + + + e + d+ +W
Y74C9A.4a 106 NLIHVGTEYQAIIQPTAE-QLEKEPCR--------------DQQIWA 137
Peqnqlsdrdldqylavarskslrtfaqa<-*
+ + ++ +l +y+++a ++ + + +a
Y74C9A.4a 138 FP-DEMNENRLTEYISEATGRYQLPIDRA 165
myb_DNA-binding: domain 1 of 2, from 190 to 235: score 39.3, E = 2.9e-09
*->rgrWteeEdellveavekhGkgfgIrlsltkanWkkIaekmgpgssn
++ Wt+eE +l+ ++ +Gk+ +kkI + m+
Y74C9A.4a 190 HDDWTAEEISLFSTCFFHFGKR-----------FKKIHAAMP----- 220
nvlgrtaeqcklryykyk<-*
r+ +++++yy++k
Y74C9A.4a 221 ---QRSLSSIIQYYYNTK 235
UPF0114: domain 1 of 1, from 403 to 415: score 3.1, E = 5.8
*->gmAYtDkiakstnh<-*
++A +D+i ++ +h
Y74C9A.4a 403 ALALIDNIKRK-HH 415
HALZ: domain 1 of 1, from 515 to 534: score 6.4, E = 2.7
*->kendeLrAevlslkeklqde<-*
k+n eL Ae +++k ++q +
Y74C9A.4a 515 KDNFELIAELMATKTVEQIK 534
myb_DNA-binding: domain 2 of 2, from 499 to 541: score 26.9, E = 8.4e-06
*->WteeEdellveavekhGkgfgIrlsltkanWkkIaekmgpgssnnvl
W++eE++ +++++ + + +++Iae+m
Y74C9A.4a 499 WSPEEKKNAIRCFHWYKDN-----------FELIAELMA-------- 526
grtaeqcklryykyk<-*
++t eq+k +y +
Y74C9A.4a 527 TKTVEQIKKFYMDNE 541
PBD: domain 1 of 1, from 522 to 541: score 5.6, E = 9
*->qeqkenpeavidvldFyedtn<-*
+e++ ++v+++++Fy+d++
Y74C9A.4a 522 AELMA-TKTVEQIKKFYMDNE 541