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:            hmm4/seq/T12E12.2
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Query:  T12E12.2  CE13585    status:Partially_confirmed TR:Q22430 protein_id:AAB03120.1

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N
--------        -----------                             -----    ------- ---
chromo          'chromo' (CHRromatin Organization MOd    26.3    3.1e-06   1
Glycos_transf_1 Glycosyl transferases group 1             4.0        7.9   1
Topoisomerase_I Eukaryotic DNA topoisomerase I, catal     3.7        4.8   1
SBP_bac_3       Bacterial extracellular solute-bindin     2.4        9.3   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
chromo            1/1      47    71 ..    26    50 .]    26.3  3.1e-06
SBP_bac_3         1/1     296   326 ..   203   233 .]     2.4      9.3
Glycos_transf_1   1/1     754   776 ..   163   191 .]     4.0      7.9
Topoisomerase_I   1/1     753   778 ..   259   284 .]     3.7      4.8

Alignments of top-scoring domains:
chromo: domain 1 of 1, from 47 to 71: score 26.3, E = 3.1e-06
                   *->GkleYlvKWkGysdseNTWEpeenI<-*
                      +k+ Ylv W+Gy+ +e TWEpeen+
    T12E12.2    47    SKYAYLVHWRGYDWKERTWEPEENL    71

SBP_bac_3: domain 1 of 1, from 296 to 326: score 2.4, E = 9.3
                   *->peLldkvNkaLaelkad.GtlkkiseKwgfgt<-*
                      +e ++++ ka+++ ++   +++k ++K+   +
    T12E12.2   296    QETKKALQKAIESAREEcEEIEKTIKKY-PLQ    326

Glycos_transf_1: domain 1 of 1, from 754 to 776: score 4.0, E = 7.9
                   *->eaiekllkdeekkdllelrkrlgenarkr<-*
                      e+i++l +++      +++k+++e+++ r
    T12E12.2   754    EKIDELKTSQ------KRYKKMIEEGKGR    776

Topoisomerase_I: domain 1 of 1, from 753 to 778: score 3.7, E = 4.8
                   *->dekidalklqiielkkaldeakkkiv<-*
                      +ekid+lk   +++kk++ e k  +v
    T12E12.2   753    TEKIDELKTSQKRYKKMIEEGKGRLV    778



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