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:            hmm2/seq/D2021.1
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Query:  D2021.1  CE01878   glucose repression mediator protein status:Partially_confirmed TR:Q09519 protein_id:AAB36864.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
jmjC         jmjC domain                                164.5    1.1e-46   1
TPR          TPR Domain                                  74.9    1.4e-19   5
CHORD        CHORD                                        6.3        2.4   1
CBS          CBS domain                                   6.0        6.8   1
HTH_10       HTH DNA binding domain                       5.1        5.5   1
Papilloma_E5 Papillomavirus E5                            5.0        4.9   1
DUF241       Arabidopsis protein of unknown function      1.6        6.9   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
TPR            1/5     105   124 ..    15    34 .]     5.1       13
TPR            2/5     129   154 ..     1    26 [.    11.5     0.19
TPR            3/5     166   193 ..     1    28 [.     9.3     0.81
HTH_10         1/1     283   295 ..    41    53 .]     5.1      5.5
TPR            4/5     344   377 ..     1    34 []    27.7  4.3e-06
TPR            5/5     378   409 ..     1    32 [.    21.7  0.00023
DUF241         1/1     632   641 ..     1    10 [.     1.6      6.9
CBS            1/1     641   697 ..     9    54 .]     6.0      6.8
CHORD          1/1     903   915 ..    54    66 .]     6.3      2.4
jmjC           1/1     901  1009 ..     1   126 []   164.5  1.1e-46
Papilloma_E5   1/1    1106  1126 ..    36    55 ..     5.0      4.9

Alignments of top-scoring domains:
TPR: domain 1 of 5, from 105 to 124: score 5.1, E = 13
                   *->gkydeAieayekALeldPnn<-*
                      +++  A+e y+++L++ P+
     D2021.1   105    NDWTGALELYQEVLSHHPDL    124

TPR: domain 2 of 5, from 129 to 154: score 11.5, E = 0.19
                   *->aeayynlGnaylklgkydeAieayek<-*
                      +  y+ lG++yl+ ++++ Aiea+++
     D2021.1   129    PSMYFGLGLVYLHFKQWKPAIEAFTR    154

TPR: domain 3 of 5, from 166 to 193: score 9.3, E = 0.81
                   *->aeayynlGnaylklgkydeAieayekAL<-*
                       +a  +lG++y++l++y+  i  ++ A+
     D2021.1   166    LQAKVRLGVCYMELEDYNRCINLFKLAV    193

HTH_10: domain 1 of 1, from 283 to 295: score 5.1, E = 5.5
                   *->sehLRrAerKlie<-*
                      ++hL++A+++li
     D2021.1   283    LDHLKKAQENLIS    295

TPR: domain 4 of 5, from 344 to 377: score 27.7, E = 4.3e-06
                   *->aeayynlGnaylklgkydeAieayekALeldPnn<-*
                      a++++ +G++y++++++ +A++a+  A+el+ ++
     D2021.1   344    ADTWCSIGALYQRQNQPIDALQAFICAIELNSTH    377

TPR: domain 5 of 5, from 378 to 409: score 21.7, E = 0.00023
                   *->aeayynlGnaylklgkydeAieayekALeldP<-*
                      + a++ lG +y+k  +y++A+e+++ A   +P
     D2021.1   378    SAAWTDLGELYEKNAQYQDALECFKNAMLNNP    409

DUF241: domain 1 of 1, from 632 to 641: score 1.6, E = 6.9
                   *->dgLsgLkELY<-*
                      d++s+L+ELY
     D2021.1   632    DSFSLLSELY    641

CBS: domain 1 of 1, from 641 to 697: score 6.0, E = 6.8
                   *->tvspdttleealelmren...gisrlPVvded........gklvGiv
                      +vs d + +e++++ +++++++ + lPV +e  + +++++g +  iv
     D2021.1   641    YVSMDISAQEIMQMVHRRtqpNSTYLPVFEEFaklpepprGPVKPIV 687

                   tlrDllralv<-*
                   t++D++ al+
     D2021.1   688 TDEDVRTALE    697

CHORD: domain 1 of 1, from 903 to 915: score 6.3, E = 2.4
                   *->FlaipGCttGkHs<-*
                      F+++pGC+t  H
     D2021.1   903    FMKVPGCRTPAHQ    915

jmjC: domain 1 of 1, from 901 to 1009: score 164.5, E = 1.1e-46
                   *->wlylGmpfsttpwHiedqglySinylhfgapkvWyiiPpeyaekfek
                       l++++p+++tp+H+++++++Sin++++++++ W+++P+ey++k++
     D2021.1   901    KLFMKVPGCRTPAHQDSNHMASININIGPGDCEWFAVPYEYWGKMH- 946

                   lhkflskhgpapdleggeqpdldlrhlltlisPkvlpLlenGipvyrfvQ
                     k++ k+g              +  l+  ++P++++Ll +Gipv+rf+Q
     D2021.1   947 --KLCEKNG--------------VDLLTGTFWPIIDDLLDAGIPVHRFTQ 980

                   kpGEfVftfPGayHqVfNlGfniaeavNF<-*
                   k+G++V++ +Ga+H+V+ +G+++++++N+
     D2021.1   981 KAGDMVYVSGGAIHWVQASGWCNNISWNV    1009

	[output cut off at A = 10 top alignments]


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