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:            hmm2/seq/F18E9.5a
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Query:  F18E9.5a  CE30957    status:Partially_confirmed TR:Q19565 protein_id:AAM54190.1

Scores for sequence family classification (score includes all domains):
Model         Description                               Score    E-value  N
--------      -----------                               -----    ------- ---
jmjC          jmjC domain                               159.6    3.1e-45   1
DiHfolate_red Dihydrofolate reductase                     8.3       0.24   1
E2F_TDP       Transcription factor E2F/dimerisation p     4.8        2.6   1
DEAD          DEAD/DEAH box helicase                      2.6        8.3   1

Parsed for domains:
Model         Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------      ------- ----- -----    ----- -----      -----  -------
E2F_TDP         1/1     254   287 ..   216   250 .]     4.8      2.6
DEAD            1/1     333   378 ..   172   207 .]     2.6      8.3
jmjC            1/1     757   865 ..     1   126 []   159.6  3.1e-45
DiHfolate_red   1/1     873   893 ..     1    22 [.     8.3     0.24

Alignments of top-scoring domains:
E2F_TDP: domain 1 of 1, from 254 to 287: score 4.8, E = 2.6
                   *->kspvPpaleeyvtaistsp.wlklgvtpvtpqkssn<-*
                      ks++P++ +   +++sts +++ +  t v +q +sn
    F18E9.5a   254    KSWSPKNESLDYQPASTSSeFTET--TSVANQTESN    287

DEAD: domain 1 of 1, from 333 to 378: score 2.6, E = 8.3
                   *->SATlpneverlaklflknpvevs..........vkse.ptplrikqk
                      SAT p +++r+++ + knp ++ +++ +++++++++++ +p+r ++
    F18E9.5a   333    SATEP-PIPRTKRAYTKNPNTIRkrrmkknqsdDEEDdGPPKRRTIN 378

                   <-*

    F18E9.5a     -     -

jmjC: domain 1 of 1, from 757 to 865: score 159.6, E = 3.1e-45
                   *->wlylGmpfsttpwHiedqglySinylhfgapkvWyiiPpeyaekfek
                      ++y+++ +s+tp+H+e+  ++Sin++ +++++vW+++P+ey++++e
    F18E9.5a   757    QMYAKPIGSRTPAHMENSLMASINWNRGPGTCVWFAVPYEYWGQLE- 802

                   lhkflskhgpapdleggeqpdldlrhlltlisPkvlpLlenGipvyrfvQ
                      ++ +hg              + +++ +++P++++Lle G+pv +f Q
    F18E9.5a   803 --FMIGEHG--------------HKYQDQDYWPSEKELLELGVPVIKFEQ 836

                   kpGEfVftfPGayHqVfNlGfniaeavNF<-*
                   k++E+V++++G++H+V+++ f+i++++N+
    F18E9.5a   837 KADEMVYVNTGCFHWVQSNSFCINVSWNV    865

DiHfolate_red: domain 1 of 1, from 873 to 893: score 8.3, E = 0.24
                   *->kislIvAvdkpnlgIGkdgdLP<-*
                        + IvA+d+ n++IG++ + P
    F18E9.5a   873    LATSIVAHDH-NMLIGNQAHVP    893



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