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:            hmm1/seq/C38D4.6
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  C38D4.6  CE27837  locus:pal-1 homeobox protein (cad subfamily) status:Confirmed SW:P34766 protein_id:CAA86322.2

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
homeobox Homeobox domain                                 87.3    3.1e-22   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
homeobox   1/1     208   263 ..     2    57 .]    87.3  3.1e-22

Alignments of top-scoring domains:
homeobox: domain 1 of 1, from 208 to 263: score 87.3, E = 3.1e-22
                   *->rkRTtFtpeQleeLEkeFqknpYPsreeReeLAkkLgLterqVkvWF
                      + R +++++Q++eLEkeF+ +p  +++++ +L+ +L Lterq+k+WF
     C38D4.6   208    KYRMVYSDYQRLELEKEFHTSPFITSDRKSQLSTMLSLTERQIKIWF 254

                   QNRRaKwKk<-*
                   QNRRaK ++
     C38D4.6   255 QNRRAKDRR    263



[DB home][top]