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/Y39H10A.6
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  Y39H10A.6  CE26075    status:Partially_confirmed TR:Q965W8 protein_id:AAK84605.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
WD40     WD domain, G-beta repeat                        75.9    8.4e-20   3

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
WD40       1/3     257   295 ..     1    39 []    30.5  7.2e-07
WD40       2/3     448   485 ..     1    39 []     2.3       74
WD40       3/3     567   606 ..     1    39 []    43.7  1.3e-10

Alignments of top-scoring domains:
WD40: domain 1 of 3, from 257 to 295: score 30.5, E = 7.2e-07
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                      + +++  ++H+  + cv+fs + g+++asg+  ++i lW+
   Y39H10A.6   257    WRQTQLWdHHKFEIFCVKFSRN-GKMMASGGKSNSITLWK    295

WD40: domain 2 of 3, from 448 to 485: score 2.3, E = 74
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                          +t+   + ++  + ++p+  +++++  +  +++lWd
   Y39H10A.6   448    NLEGTTIcKEEVTIIHMTVHPS-ERLVLTTTE-LNLRLWD    485

WD40: domain 3 of 3, from 567 to 606: score 43.7, E = 1.3e-10
                   *->geclatl.gHtspvtcvafspdsgpylasgSrDgtiklWd<-*
                        + ++l gH + v++va++p ++++l+s+++D ti++W+
   Y39H10A.6   567    SRPRYSLvGHRGHVNAVAWNPADPTMLVSCGADATIRVWS    606



[DB home][top]