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/C05B5.5
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Query:  C05B5.5  CE00051   EGF repeats status:Partially_confirmed SW:P34293 protein_id:CAA83593.1

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
EB         EB module                                    106.4    5.5e-28   2
F-box      F-box domain                                  21.0    0.00077   1
dickkopf_N Dickkopf N-terminal cysteine-rich region       8.8       0.15   3
granulin   Granulin                                       4.3        5.7   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
F-box        1/1      13    60 ..     1    46 []    21.0  0.00077
dickkopf_N   1/3     363   382 ..    35    54 .]     0.9       64
granulin     1/1     396   409 ..    28    43 .]     4.3      5.7
EB           1/2     369   436 ..     1    63 []    54.1    7e-13
dickkopf_N   2/3     419   438 ..    35    54 .]    14.2   0.0025
EB           2/2     513   577 ..     1    63 []    60.3  1.5e-14
dickkopf_N   3/3     523   579 ..     1    54 []     7.6     0.39

Alignments of top-scoring domains:
F-box: domain 1 of 1, from 13 to 60: score 21.0, E = 0.00077
                   *->fslldLPdellleIlsrLdpkdllrlslVSkrwrslvdsl.lwf.kl
                       +  dLPd + ++I+++L+p ++++ls+ Sk  +  + + +++  k
     C05B5.5    13    LNYVDLPDTVHRKIFEYLNPWEIFKLSRISKAIHVTILKNkKFAvKD 59

                   l<-*
                   +
     C05B5.5    60 I    60

dickkopf_N: domain 1 of 3, from 363 to 382: score 0.9, E = 64
                   *->CtRDamCCpgnlCvNGiCtp<-*
                      C++ a C p+  Cv G+C
     C05B5.5   363    CSTNADCLPSGNCVDGECLV    382

granulin: domain 1 of 1, from 396 to 409: score 4.3, E = 5.7
                   *->CPqGfhCdadggrClq<-*
                      CP G+ C  +  +C +
     C05B5.5   396    CPNGYQCVNR--KCSR    409

EB: domain 1 of 2, from 369 to 436: score 54.1, E = 7e-13
                   *->ClsgqVlingqCvakelnkvnpGesgCeaseQCqggwpgSvCingmC
                      Cl+   +++g+C    l+ ++ G+  C+++ QC++g   ++C n++C
     C05B5.5   369    CLPSGNCVDGEC----LVDNGNGG-LCTTNTQCPNG---YQCVNRKC 407

                   ................eCpegvpkttrvngvC<-*
                   ++++++ ++ +  +++eCp+g   t++ ngvC
     C05B5.5   408 srnsrhfndlpcvtetECPPG---TRCINGVC    436

dickkopf_N: domain 2 of 3, from 419 to 438: score 14.2, E = 0.0025
                   *->CtRDamCCpgnlCvNGiCtp<-*
                      C +  +C pg++C NG+Ct
     C05B5.5   419    CVTETECPPGTRCINGVCTG    438

EB: domain 2 of 2, from 513 to 577: score 60.3, E = 1.5e-14
                   *->ClsgqVlingqCvakelnkvnpGesgCeaseQCqggwpgSvCingmC
                      C  + ++++g+C    l+ +++G+  C++s QC+ g   ++Ci+g+C
     C05B5.5   513    CGNKGICVDGEC----LVDNGLGG-YCSTSTQCPTG---YQCIDGKC 551

                   .............eCpegvpkttrvngvC<-*
                   +++++   ++   eCp+g   t++ ngvC
     C05B5.5   552 ktkrhflappcvaECPPG---TRCINGVC    577

dickkopf_N: domain 3 of 3, from 523 to 579: score 7.6, E = 0.39
                   *->eCisDeDCgtdeYChssrqgks..lvCl..pCRkrrkr....CtRDa
                      eC+ D   g++ YC+ s+q  ++++ C ++ C+++r    ++C   a
     C05B5.5   523    ECLVDN--GLGGYCSTSTQ-CPtgYQCIdgKCKTKRHFlappCV--A 564

                   mCCpgnlCvNGiCtp<-*
                   +C pg++C NG+Ct
     C05B5.5   565 ECPPGTRCINGVCTG    579



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