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/F45E1.6
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Query:  F45E1.6  CE01943   Histone H3 status:Confirmed SW:Q10453 protein_id:AAB04902.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
histone  Core histone H2A/H2B/H3/H4                     100.0    4.4e-27   1
TAF      TATA box binding protein associated factor (     2.7        5.9   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
TAF        1/1     114   129 ..    51    68 .]     2.7      5.9
histone    1/1      17   135 ..     1   117 []   100.0  4.4e-27

Alignments of top-scoring domains:
TAF: domain 1 of 1, from 114 to 129: score 2.7, E = 5.9
                   *->HsKRtkLTvsDidsAqLk<-*
                      H+KR + ++ Di  A  +
     F45E1.6   114    HAKRVTIMPKDIQLA--R    129

histone: domain 1 of 1, from 17 to 135: score 100.0, E = 4.4e-27
                   *->agkkgagkk..........kkrsrsrkaglqfyvgRvlkqlhpdtgi
                      ++k+ a+k+ +++ ++++++k+++  +++++++++R+++ ++++t++
     F45E1.6    17    PRKQLATKAarksapttggVKKPH--RYRPGTVALREIRRYQKSTEL 61

                   ssragaiansyvadvlErlaaEaleLagnakkdtKkkRitpreiqlAvrl
                   ++r+ +++ ++v+++++ +++++ +++++a+ ++    +++ e++l++++
     F45E1.6    62 LIRKLPFQ-RLVREIAQDFKTDL-RFQSAAIGAL----QEASEAYLVGLF 105

                   dlelelakhAvtegtkaVtpniskrllgkk<-*
                   ++++++a+hA++++++++++++++r++g++
     F45E1.6   106 EDTNLCAIHAKRVTIMPKDIQLARRIRGER    135



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