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:            hmm1/seq/C47D12.6
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Query:  C47D12.6  CE05434  locus:trs-1 threonyl-tRNA synthetase status:Partially_confirmed SW:P52709 protein_id:CAA93762.1

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
tRNA-synt_2b   tRNA synthetase class II core domain (   193.9    1.3e-56   1
HGTP_anticodon Anticodon binding domain                 106.8    3.4e-30   1
TGS            TGS domain                                84.9    3.2e-22   1
Autophagy_N    Autophagocytosis associated protein, N     6.7        1.4   1
DUF427         Domain of unknown function (DUF427)        4.1        7.8   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
TGS              1/1      78   142 ..     1    77 []    84.9  3.2e-22
tRNA-synt_2b     1/1     340   494 ..     1   229 []   193.9  1.3e-56
DUF427           1/1     537   550 ..    91   105 .]     4.1      7.8
Autophagy_N      1/1     587   606 ..     1    20 [.     6.7      1.4
HGTP_anticodon   1/1     613   710 ..     1   108 []   106.8  3.4e-30

Alignments of top-scoring domains:
TGS: domain 1 of 1, from 78 to 142: score 84.9, E = 3.2e-22
                   *->fldlirvytKPdGkvpdfePlilpkGsTTpeDfAyaIHtdlgkkfig
                      ++++i +++ PdGk+ +      + ++TTp ++A++I+++l++++++
    C47D12.6    78    ESEPIQITL-PDGKIHE-----GKTWRTTPFEIAERISKGLAEAAVI 118

                   AkVnGkSvKhpqrVgLdhvLedgDvVeIvt<-*
                   AkVnG        ++Ld++ e ++++e+++
    C47D12.6   119 AKVNG------AVWDLDRPFEGNAKLELLK    142

tRNA-synt_2b: domain 1 of 1, from 340 to 494: score 193.9, E = 1.3e-56
                   *->GfydllPlGarlrralenfirevfelikfeiGieyGyqevdtPilep
                      G+ +++P+Ga ++++l++fir+++++        +G++ev+tP +++
    C47D12.6   340    GSAFWYPKGAHIYNKLVDFIRKQYRR--------RGFTEVITPNMYN 378

                   eeelwkgsGhldkfvenMfkckkcgKelyrfddegeeqkekLkkgdeeae
                   +  lw++sGh+++++e+Mfk         ++++e
    C47D12.6   379 K-KLWETSGHWQHYSEDMFK--------IEVEKE---------------- 403

                   lpeleieynirPecGLtPrFNLMFTIGPgggreelyLrPtaevgiarlfk
                                                    e+ L+P++++g++++f
    C47D12.6   404 ---------------------------------EFGLKPMNCPGHCLMFG 420

                   neilsyreekdLPlklyqigpcFRyEaspaGkdrrGlgRvReFtqvedeh
                   +  + y+   +LP++++ +g  +R+E s+   ++ Gl+RvR F+ ++d+h
    C47D12.6   421 HMPHTYN---ELPFRFADFGVLHRNEMSG---ALTGLTRVRRFQ-QDDAH 463

                   ifhpdeeqaseeadeellllaeeilqaLGlpy<-*
                   if+  ++q+see+ + l++l + + + +G+++
    C47D12.6   464 IFCR-QDQISEEIKQCLDFLEYAYEKVFGFTF    494

DUF427: domain 1 of 1, from 537 to 550: score 4.1, E = 7.8
                   *->vAFYpekVDkiyvdg<-*
                      +AFY +k D i++++
    C47D12.6   537    GAFYGPKID-ITIQD    550

Autophagy_N: domain 1 of 1, from 587 to 606: score 6.7, E = 1.4
                   *->tlksaalnvrEylTPvlkeS<-*
                      +++ a l+ +E++T +l+eS
    C47D12.6   587    MIHRAVLGSVERMTAILTES    606

HGTP_anticodon: domain 1 of 1, from 613 to 710: score 106.8, E = 3.4e-30
                   *->pwlAPiqVvviPlgekeelldyAeklaeeLraaGirvelDykgkddr
                       wl+P+q+ +i+++e   ++dyA ++ ++  +aG++ e+      +
    C47D12.6   613    FWLSPRQCKIITVHE--SVRDYANDVKKQIFEAGFEIEYE-----EN 652

                   nerklGkkfrdAdliGiPfavvvGekElengldgtVtvrdRdtgeqetvs
                    + +++k++r+A+l + +f++v+G+kE en   gtV+vr+Rd+  +++v+
    C47D12.6   653 CGDTMNKQVRKAQLAQFNFILVIGAKEKEN---GTVNVRTRDNAVRGEVA 699

                   leelveklkel<-*
                   l++l++k+++
    C47D12.6   700 LDKLISKFRRF    710



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