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/K08F8.2
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Query:  K08F8.2  CE03468   transcription factor status:Partially_confirmed TR:Q21361 protein_id:CAA91284.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
bZIP     bZIP transcription factor                       28.5    1.4e-06   2
bZIP_Maf bZIP Maf transcription factor                   10.5      0.091   1
HALZ     Homeobox associated leucine zipper               6.0        3.3   1
K-box    K-box region                                     5.8        2.1   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
bZIP       1/2      60   100 ..     9    49 ..     7.5      1.3
K-box      1/1     359   377 ..    87   105 .]     5.8      2.1
bZIP_Maf   1/1     357   383 ..   138   167 ..    10.5    0.091
bZIP       2/2     335   391 ..     9    65 .]    29.4  7.9e-07
HALZ       1/1     367   392 ..    20    45 .]     6.0      3.3

Alignments of top-scoring domains:
bZIP: domain 1 of 2, from 60 to 100: score 7.5, E = 1.3
                   *->RkqkNReAArrsRlRKqaeieeLeekveeLeaeNkaLrkel<-*
                      R+ +N  A+rrsR+++++     eek+  L+aeN++L++ l
     K08F8.2    60    RRRRNNDASRRSREKRRQNDLAMEEKIMLLSAENERLKSQL    100

K-box: domain 1 of 1, from 359 to 377: score 5.8, E = 2.1
                   *->kKErelqeeNkaLrkKiee<-*
                      ++ + l+ eN++Lr +ie
     K08F8.2   359    RRVQLLEGENEDLRTQIET    377

bZIP_Maf: domain 1 of 1, from 357 to 383: score 10.5, E = 0.091
                   *->RaKRvqQkheLEkeKaqLaqQleqLkeEvs<-*
                      R++Rvq    LE e+  L++Q+e+Lk+E++
     K08F8.2   357    RSRRVQ---LLEGENEDLRTQIETLKAEIA    383

bZIP: domain 2 of 2, from 335 to 391: score 29.4, E = 7.9e-07
                   *->RkqkNReAArrsRlRKqaeieeLeekveeLeaeNkaLrkelerLkke
                      R+ +N eAA+r+R+ ++a  e   ++v+ Le+eN++Lr  +e+Lk e
     K08F8.2   335    RRRRNNEAAKRCRANRRAVFEYRSRRVQLLEGENEDLRTQIETLKAE 381

                   vakLksenee<-*
                   +a  ks +
     K08F8.2   382 IAHFKSVLAQ    391

HALZ: domain 1 of 1, from 367 to 392: score 6.0, E = 3.3
                   *->endsLqkendeLrAevlslkeklqde<-*
                      en+ L+ + + L+Ae+   k++l ++
     K08F8.2   367    ENEDLRTQIETLKAEIAHFKSVLAQR    392



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