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/C04F12.3
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Query:  C04F12.3  CE19676   Ank repeat status:Partially_confirmed TR:Q9U3S0 protein_id:CAB62796.1

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
ank            Ankyrin repeat                           128.3    9.2e-35   6
death          Death domain                              68.8    8.8e-19   1
MgtE_N         MgtE intracellular domain                  5.4        2.9   1
Herpes_alk_exo Herpesvirus alkaline exonuclease           2.2        5.7   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
ank              1/6     173   204 ..     1    33 []    12.0     0.13
ank              2/6     212   244 ..     1    33 []    35.3  2.9e-08
ank              3/6     245   281 ..     1    33 []     6.7      4.2
ank              4/6     282   314 ..     1    33 []    25.4    2e-05
ank              5/6     316   348 ..     1    33 []    18.5   0.0018
ank              6/6     349   381 ..     1    33 []    30.4  7.3e-07
MgtE_N           1/1     567   593 ..    71    97 ..     5.4      2.9
death            1/1     517   595 ..     1    86 []    68.8  8.8e-19
Herpes_alk_exo   1/1     562   597 .]     1    41 [.     2.2      5.7

Alignments of top-scoring domains:
ank: domain 1 of 6, from 173 to 204: score 12.0, E = 0.13
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      +GnT  H+Aak+g+   +klLl+    +++++
    C04F12.3   173    EGNTVFHVAAKNGQSFSLKLLLS-VIPPDIKNE    204

ank: domain 2 of 6, from 212 to 244: score 35.3, E = 2.9e-08
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      +G T+LH+A++ g+++ v +L+++GA +++ d+
    C04F12.3   212    HGLTALHVAIRTGDPDAVHYLMNHGAKIDISDN    244

ank: domain 3 of 6, from 245 to 281: score 6.7, E = 4.2
                   *->dGnTPLHlAakrgnlevvklLlq....rGAdlnaqdd<-*
                      +G+T+LH+     n ++ k +l++++++  d+n  +
    C04F12.3   245    HGSTALHYLGDAYNESIFKEILEpsrgQRFDVNQLNS    281

ank: domain 4 of 6, from 282 to 314: score 25.4, E = 2e-05
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      +G+ P H+A++r  l+++++L+++GA ++  d
    C04F12.3   282    EGFAPIHVAVRRLKLSLIEMLIEAGALIDFLDT    314

ank: domain 5 of 6, from 316 to 348: score 18.5, E = 0.0018
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                        + +L+ A+++++ e ++lL++rG+ +n+ d
    C04F12.3   316    KKRNALMHAIEMNDFETIQLLVERGSGTNIEDE    348

ank: domain 6 of 6, from 349 to 381: score 30.4, E = 7.3e-07
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                       G+T+L lA+k+ n+ v+ lLl++GAd+n q+
    C04F12.3   349    SGETALSLAVKNVNYPVIGLLLDNGADPNRQNS    381

MgtE_N: domain 1 of 1, from 567 to 593: score 5.4, E = 2.9
                   *->lealsdeelaealeeLdpDDaadlLeE<-*
                      le+ s+++l +a+++++ DDa+ l ++
    C04F12.3   567    LEDSSISRLRDAMNQMAEDDAVKLIDS    593

death: domain 1 of 1, from 517 to 595: score 68.8, E = 8.8e-19
                   *->relekllddpdlgrdWkrLArkLglseeeIdqiehenprdlrsptyq
                       ++ k++dd+   + W+rLA++L+++ ++++ i+ ++ +d++spt+
    C04F12.3   517    IRVAKIFDDQ---CKWQRLAQQLNCD-HMVELISICSSGDDSSPTMI 559

                   lLdlWeqregkneAtvgtLleaLrkmgrddavellesal<-*
                   lLd++eq e    +++ +L++a+++m +ddav+l+ s+
    C04F12.3   560 LLDQFEQLED---SSISRLRDAMNQMAEDDAVKLIDSRY    595

Herpes_alk_exo: domain 1 of 1, from 562 to 597: score 2.2, E = 5.7
                   *->dlkevlasltfsrhFLksppvpefiatakravkfprlRlvY<-*
                      d+ e+l++ + sr  L+++ ++ ++     avk+++ R+vY
    C04F12.3   562    DQFEQLEDSSISR--LRDAMNQMAED---DAVKLIDSRYVY    597



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