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/W08G11.1
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Query:  W08G11.1  CE16558    status:Partially_confirmed TR:

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
DUF268     Caenorhabditis protein of unknown function   459.1   3.8e-134   1
Neuregulin Neuregulin family                              3.1        1.8   1
DUF270     Protein of unknown function, DUF270            2.6       0.26   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
DUF270       1/1      13    20 ..   706   713 .]     2.6     0.26
Neuregulin   1/1     228   237 ..   397   406 .]     3.1      1.8
DUF268       1/1     191   367 .]     1   188 []   459.1 3.8e-134

Alignments of top-scoring domains:
DUF270: domain 1 of 1, from 13 to 20: score 2.6, E = 0.26
                   *->PLvVFYRF<-*
                      P++VF+RF
    W08G11.1    13    PITVFFRF    20

Neuregulin: domain 1 of 1, from 228 to 237: score 3.1, E = 1.8
                   *->qEELqARLss<-*
                      qEE q RLss
    W08G11.1   228    QEEFQDRLSS    237

DUF268: domain 1 of 1, from 191 to 367: score 459.1, E = 3.8e-134
                   *->dgmsGvViGSmqPwvEVsaLqhGnylkPnkAskiLTvEyneriLeIe
                      dg sG V+GSmqPwvEV+aL++G       A kiLTvEyn+  LeI+
    W08G11.1   191    DGLSGFVVGSMQPWVEVMALKNG-------ARKILTVEYNK--LEIQ 228

                   eefrdRedlSSilPtdFaknwkkYaesFDFAAsFssIEhsGLGrYGdPlD
                   eef+dR  lSSilP++Faknw++Ya++ DFAAsFssIEhsGLGrYGdP+D
    W08G11.1   229 EEFQDR--LSSILPVEFAKNWQEYAGKLDFAASFSSIEHSGLGRYGDPID 276

                   PiGDLREmlKIkCvLKkGGLLFLGlPlGtDAlqFnahRIYGsvRLAMmfa
                   PiGDLREmlKIkC+LK+GGLLFLGlPlGtDA+q+nahRIYGs+RLAMmf+
    W08G11.1   277 PIGDLREMLKIKCMLKQGGLLFLGLPLGTDAIQYNAHRIYGSIRLAMMFY 326

                   GFEWiaTFSgdseksidLtsqrldsknlFgliqyTLVLRKl<-*
                   GFEW++T+Sgdse+++d++s+rl+ k +Fgl+q+TLVLRKl
    W08G11.1   327 GFEWLDTYSGDSEEAFDFNSARLHYKGTFGLTQHTLVLRKL    367



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