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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm1/seq/C08B11.3
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query:  C08B11.3  CE01473   Zinc finger, C2H2 type status:Partially_confirmed SW:Q09441 protein_id:CAA86663.1

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N
--------        -----------                             -----    ------- ---
ARID            ARID/BRIGHT DNA binding domain          174.7    1.5e-48   1
zf-C2H2         Zinc finger, C2H2 type                   15.9      0.066   1
RNA_pol_N       RNA polymerases N / 8 kDa subunit         5.7        4.5   1
RFX_DNA_binding RFX DNA-binding domain                    5.4        1.3   1
Chorion_2       Chorion family 2                          3.5          8   1
Enterotoxin_HS  Heat-stable enterotoxin                   1.7        5.3   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
ARID              1/1      21   131 ..     1   116 []   174.7  1.5e-48
RNA_pol_N         1/1     258   272 ..    69    87 .]     5.7      4.5
Chorion_2         1/1     323   331 ..     1     9 [.     3.5        8
RFX_DNA_binding   1/1     626   650 ..    21    45 ..     5.4      1.3
Enterotoxin_HS    1/1     927   954 ..    17    48 ..     1.7      5.3
zf-C2H2           1/1     945   970 ..     1    24 []    15.9    0.066

Alignments of top-scoring domains:
ARID: domain 1 of 1, from 21 to 131: score 174.7, E = 1.5e-48
                   *->eaqtrerkeFldrLikFmekrGtpltkiPvvgkkeLDLYrLyrlVke
                      ++++r+++eF+++L++F+++r+++++k+P+v+++e++LYrLy++V++
    C08B11.3    21    PEKQRKMAEFYNSLRMFYKRRWNATLKLPHVQGVEVNLYRLYDTVMA 67

                   kGGlqqVtkkkkWreiareLnipdsisRGvPSsaaslLrshYmryLypyE
                    GG+q+V++++kW++ia++++++d+i+     +++++++++YmryL+++E
    C08B11.3    68 LGGWQKVAASDKWSDIAEMFGCKDDIL-----CGDHAIKIIYMRYLSKFE 112

                   cyeeeenlpdeteaamdme<-*
                   ++e++++++d+++++m+++
    C08B11.3   113 QVETIGDVDDYVDNEMSRS    131

RNA_pol_N: domain 1 of 1, from 258 to 272: score 5.7, E = 4.5
                   *->MLishvdGeDGRelirkii<-*
                      ML++ +d    Re+  ++i
    C08B11.3   258    MLMTFLD----REIEAEYI    272

Chorion_2: domain 1 of 1, from 323 to 331: score 3.5, E = 8
                   *->MKfLiiFVt<-*
                      MKfLi +++
    C08B11.3   323    MKFLIMCAS    331

RFX_DNA_binding: domain 1 of 1, from 626 to 650: score 5.4, E = 1.3
                   *->WLkenyEeqedvclPRsklYahYlk<-*
                      W+++n+      + PR++lYa+Y++
    C08B11.3   626    WIRQNCVFEPAMSTPRGELYAAYVD    650

Enterotoxin_HS: domain 1 of 1, from 927 to 954: score 1.7, E = 5.3
                   *->taEvnkkkCdtqkenpeikveenndwdyCCEl<-*
                      + E+ k+kC +++ np    + + dw +CC +
    C08B11.3   927    AQESEKRKCVPPSSNPT---DYMCDW-DCCSI    954

zf-C2H2: domain 1 of 1, from 945 to 970: score 15.9, E = 0.066
                   *->ykCpf.dCgksFsrksnLkrHlrt.H<-*
                      y+C+++ C   + ++s+  +Hl  +H
    C08B11.3   945    YMCDWdCCSIYYASPSHVLKHLSEeH    970



[DB home][top]