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/C29E6.2
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Query:  C29E6.2  CE05333   ankyrin repeats status:Partially_confirmed TR:Q18297 protein_id:CAA96603.1

Scores for sequence family classification (score includes all domains):
Model       Description                                 Score    E-value  N
--------    -----------                                 -----    ------- ---
ank         Ankyrin repeat                              299.9      3e-86  16
ion_trans   Ion transport protein                        70.6    5.6e-18   1
LRV         Leucine rich repeat variant                  11.6       0.75   1
DUF544      Protein of unknown function (DUF544)          5.7        2.7   1
GATase_2    Glutamine amidotransferases class-II          3.1        7.9   1
Bac_Ubq_Cox Bacterial Cytochrome Ubiquinol Oxidase        1.2        7.5   1

Parsed for domains:
Model       Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------    ------- ----- -----    ----- -----      -----  -------
ank           1/16     65    97 ..     1    33 []    36.3  1.5e-08
ank           2/16     98   154 ..     1    33 []    20.2  0.00058
ank           3/16    155   187 ..     1    33 []    29.6  1.2e-06
ank           4/16    188   220 ..     1    33 []    27.5  4.8e-06
ank           5/16    221   244 ..     1    24 [.     2.5       65
LRV           1/1     227   245 ..     5    24 .]    11.6     0.75
ank           6/16    259   281 ..     1    23 [.     3.5       34
ank           7/16    299   325 ..     7    33 .]    11.4     0.19
ank           8/16    330   359 ..     5    33 .]    20.1  0.00065
ank           9/16    360   392 ..     1    33 []    33.5  9.4e-08
ank          10/16    393   425 ..     1    33 []     1.9       97
ank          11/16    455   487 ..     1    33 []    28.6  2.4e-06
ank          12/16    488   497 ..     1    10 [.     3.0       48
ank          13/16    517   549 ..     1    33 []    34.0    7e-08
ank          14/16    550   582 ..     1    33 []    16.5   0.0069
GATase_2      1/1     568   592 ..   131   156 .]     3.1      7.9
ank          15/16    585   614 ..     4    33 .]    20.0   0.0007
ank          16/16    615   649 ..     1    33 []    11.2     0.22
Bac_Ubq_Cox   1/1     783   801 ..   115   133 ..     1.2      7.5
ion_trans     1/1     847  1045 ..     1   228 []    70.6  5.6e-18
DUF544        1/1    1168  1184 ..    65    81 ..     5.7      2.7

Alignments of top-scoring domains:
ank: domain 1 of 16, from 65 to 97: score 36.3, E = 1.5e-08
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      d +TPLH+Aa++gn++ vklLl++ A +n +++
     C29E6.2    65    DFMTPLHYAARYGNYDAVKLLLSKNALPNTKNR    97

ank: domain 2 of 16, from 98 to 154: score 20.2, E = 0.00058
                   *->dGnTPLHlAakrg........................nlevvklLlq
                      +G+TPLH+A+k++ + ++  +  +++  ++  + ++  ++++  L++
     C29E6.2    98    EGDTPLHIASKYIygysdicsiidedqadsarkyntaTKKIINALVS 144

                   rGAdlnaqdd<-*
                     A+++ +++
     C29E6.2   145 ENAEIDPVNK    154

ank: domain 3 of 16, from 155 to 187: score 29.6, E = 1.2e-06
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      +  TPLH+Aa++ n + +  L++  Ad++a dd
     C29E6.2   155    YQLTPLHYAAMKSNFSALHALIKLKADVDAEDD    187

ank: domain 4 of 16, from 188 to 220: score 27.5, E = 4.8e-06
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                      + +TPL lA+ +g+ e+++ L+++ +++  +d
     C29E6.2   188    NKMTPLLLACVHGSQEIIQELIKANSNVTKRDQ    220

ank: domain 5 of 16, from 221 to 244: score 2.5, E = 65
                   *->dGnTPLHlAakrgnlevvklLlqr<-*
                      + nT  H+ a+rg++e +++ +++
     C29E6.2   221    RLNTVFHIVALRGEPEYLEMMMDH    244

LRV: domain 1 of 1, from 227 to 245: score 11.6, E = 0.75
                   *->aiVArRlppeaLerLlaDpD<-*
                      +iVA R +pe Le+++ D D
     C29E6.2   227    HIVALRGEPEYLEMMM-DHD    245

ank: domain 6 of 16, from 259 to 281: score 3.5, E = 34
                   *->dGnTPLHlAakrgnlevvklLlq<-*
                      +  TPL +A++ +++e +k +lq
     C29E6.2   259    EKKTPLRMAVEGNHPETLKKILQ    281

ank: domain 7 of 16, from 299 to 325: score 11.4, E = 0.19
                   *->HlAakrgnlevvklLlqrGAdlnaqdd<-*
                      H Aa++g lev+k L+++G + n  +
     C29E6.2   299    HFAAEKGFLEVLKALVEAGGNKNELNE    325

ank: domain 8 of 16, from 330 to 359: score 20.1, E = 0.00065
                   *->PLHlAakrgnlevvklLlq.rGAdlnaqdd<-*
                      PLH+Aa++++levv++L+++   +++++d
     C29E6.2   330    PLHVAAQMNQLEVVSYLIEeEKDNIDVVDE    359

ank: domain 9 of 16, from 360 to 392: score 33.5, E = 9.4e-08
                   *->dGnTPLHlAakrgnlevvklLlqrGAdlnaqdd<-*
                       G TPL++A+ ++++++v++L+ + A+l ++d+
     C29E6.2   360    QGLTPLMMAVTHDSKKCVEYLIAKKANLTITDK    392

	[output cut off at A = 10 top alignments]


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