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/Y39B6A.19
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Query:  Y39B6A.19  CE29861    status:Partially_confirmed TN:CAD31817 protein_id:CAD31817.1

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N
--------    -----------                                 -----    ------- ---
ion_trans   Ion transport protein                        44.8    5.8e-11   2
TPP_enzymes Thiamine pyrophosphate enzyme, central do     4.2        5.7   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
TPP_enzymes   1/1      36    83 ..    87   127 ..     4.2      5.7
ion_trans     1/2     108   159 ..   173   228 .]    31.0  3.2e-07
ion_trans     2/2     217   274 ..   173   228 .]    20.2  0.00028

Alignments of top-scoring domains:
TPP_enzymes: domain 1 of 1, from 36 to 83: score 4.2, E = 5.7
                   *->lviavGa.RFNdDrvtgkltafaknakk........riihiDiDpae
                      ++++vGa +F   r ++ l+++  +a+ + +++ ++r+i+ DiD  e
   Y39B6A.19    36    VYLFVGAiVF--VRIEYPLEKIEREAYLdyqnqwrdRLIQLDIDESE 80

                   igk<-*
                   i+k
   Y39B6A.19    81 IDK    83

ion_trans: domain 1 of 2, from 108 to 159: score 31.0, E = 3.2e-07
                   *->dnfgeaflwlFqtlTteGwgdimpdtlagtvlgkiyfvifiilggfl
                      ++fg+af+++ ++++t+G+g + p     t +gk++ ++++++g+ l
   Y39B6A.19   108    WTFGQAFFFAGTLISTVGYGRVSPR----TEYGKLFTILYCVIGIPL 150

                   llNlfiavi<-*
                   +l+l+ a++
   Y39B6A.19   151 TLALLSAIV    159

ion_trans: domain 2 of 2, from 217 to 274: score 20.2, E = 0.00028
                   *->dnfgeaflwlFqtlTteGwgdimpdtl...agtvlgkiyfvifiilg
                      +++++af+++F++lTt+G gd  p  +++++ + l+ki + +++++g
   Y39B6A.19   217    WSYLDAFYYCFVSLTTIGLGDFEPGDDpnqSFRGLYKIGA-TVYLMG 262

                   gflllNlfiavi<-*
                   g+  + lf+a +
   Y39B6A.19   263 GLCCMMLFLATL    274



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