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:            hmm3/seq/K03A11.1
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Query:  K03A11.1  CE06071    status:Partially_confirmed TR:Q27502 protein_id:CAB00865.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
ShTK         ShTK domain                                115.3    4.1e-33   4
Clathrin     Region in Clathrin and VPS                   4.9        5.7   1
AP_endonuc_2 AP endonuclease family 2                     4.6        3.2   1
DUF195       Uncharacterized BCR, YigN family, COG132     2.4        9.7   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
AP_endonuc_2   1/1     136   173 ..     1    42 [.     4.6      3.2
DUF195         1/1     280   300 ..     1    21 [.     2.4      9.7
ShTK           1/4     821   829 ..    36    44 .]    -0.4  2.4e+02
ShTK           2/4     835   875 ..     1    44 []    36.6  1.7e-09
Clathrin       1/1     864   883 ..   139   158 .]     4.9      5.7
ShTK           3/4     878   914 ..     1    44 []    51.9  4.7e-14
ShTK           4/4     931   969 .]     1    43 [.    45.5  3.8e-12

Alignments of top-scoring domains:
AP_endonuc_2: domain 1 of 1, from 136 to 173: score 4.6, E = 3.2
                   *->igahvslsggeeslenaleraaeiGfdaveiflknpvrlwks<-*
                      ++  v++s +   +en +e+ a+ G+da++ ++k++ +++++
    K03A11.1   136    VHNGVHISTP---TENLAENNANNGLDAIADLVKPY-QNVQL    173

DUF195: domain 1 of 1, from 280 to 300: score 2.4, E = 9.7
                   *->skrLesilkpvretLeeflkq<-*
                      +k L+++l++ + +L e +++
    K03A11.1   280    EKELDEMLEIAQKQLAEVKRN    300

ShTK: domain 1 of 4, from 821 to 829: score -0.4, E = 2.4e+02
                   *->CpkTCGfCs<-*
                      CpkTCG+C
    K03A11.1   821    CPKTCGYCC    829

ShTK: domain 2 of 4, from 835 to 875: score 36.6, E = 1.7e-09
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                      +C ++++p+++Ca+ +s+  +C++p+ ++++++e+Cp  CGfC
    K03A11.1   835    DCNNSPFPRINCAMVTSR--MCKDPQ-WREVLTEDCPNVCGFCL    875

Clathrin: domain 1 of 1, from 864 to 883: score 4.9, E = 5.7
                   *->pelwaevlkacldkkrflla<-*
                      +e+ + v+++cl++ +f+ a
    K03A11.1   864    TEDCPNVCGFCLEGGCFDKA    883

ShTK: domain 3 of 4, from 878 to 914: score 51.9, E = 4.7e-14
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfCs<-*
                      +C+   D+a+dC +  s+   C n + +qdf+ke+C+kTCGfC
    K03A11.1   878    GCF---DKAVDCTTDISI---CMNVG-MQDFVKEYCRKTCGFCR    914

ShTK: domain 4 of 4, from 931 to 969: score 45.5, E = 3.8e-12
                   *->tCvDyvDpasdCaawaslGefCnnppYyqdfmkenCpkTCGfC<-*
                      +Cv   D++++Ca+w  +G+ C++p+Y ++ + +nC+ TCG+C
    K03A11.1   931    NCV---DYNTNCASWSFRGY-CTSPFYSYETRFANCAATCGLC    969



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