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:            hmm4/seq/R05D8.8
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Query:  R05D8.8  CE23899  locus:dhs-14 alcohol dehydrogenase status:Partially_confirmed TR:Q9N5G3 protein_id:AAF39953.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
adh_short    short chain dehydrogenase                  224.5    1.6e-63   1
HesB-like    HesB-like domain                             4.0        5.1   1
Shikimate_DH Shikimate / quinate 5-dehydrogenase          3.3        8.5   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
Shikimate_DH   1/1      19    45 ..   123   150 ..     3.3      8.5
HesB-like      1/1     125   136 ..     1    12 [.     4.0      5.1
adh_short      1/1       5   262 ..     1   271 []   224.5  1.6e-63

Alignments of top-scoring domains:
Shikimate_DH: domain 1 of 1, from 19 to 45: score 3.3, E = 8.5
                   *->aRAvayaLlklGvkkIyIaNRTveKAee<-*
                      +RA a+ L+++G +k++I  R+++++ee
     R05D8.8    19    GRATAVLLAQEG-AKVTITGRNADRLEE    45

HesB-like: domain 1 of 1, from 125 to 136: score 4.0, E = 5.1
                   *->mItLTdaAaahi<-*
                      ++tLT +A++h+
     R05D8.8   125    VVTLTQKAKEHL    136

adh_short: domain 1 of 1, from 5 to 262: score 224.5, E = 1.6e-63
                   *->tgKvaLvTGassGIGlaiAkrLakeGakVvvvdrreekae.qvaael
                      +gKvaLvTG s GIG+a+A  La eGakV +++r+++++e++  + l
     R05D8.8     5    SGKVALVTGSSNGIGRATAVLLAQEGAKVTITGRNADRLEeTRQEIL 51

                   kaelG.dralfiqlDvtdeeqvkaavaqaverlGdrlDvLVNNAGilgdg
                   k+  ++d +l i++D++ e   + +v+  ++++G rlD+LVNNAG + +
     R05D8.8    52 KSGVPeDHVLSIATDLATEKGQDELVNSTIQKFG-RLDILVNNAGAAFND 100

                   ppfe...elseedwervidvNltGvflltravlpamdhmlkrkgGrIvNi
                   +  + + + ++  ++r++++N ++v+ lt+ + +   h+ k  +G +vN+
     R05D8.8   101 DQGRvgvDQDVSVYDRIMQINMRSVVTLTQKAKE---HLVK-AKGEVVNV 146

                   sSvaGlrvgvpglsaYsASKaavigltrsLAlElaphgtgIrVnavaPGg
                   sS+++  ++ p +  Y+ SKaa+ + trs+A +l ++g  +rVn+v+PG+
     R05D8.8   147 SSIGAGPQAQPTFMYYAMSKAALDQYTRSAAIDLIQYG--VRVNSVSPGA 194

                   vdT..........dmtkalrsrlieakkkvrevadiadpeleeritstit
                   v T+ ++  + + dm+++++                  + +e r+   i
     R05D8.8   195 VVTgfgeamgmpaDMHEKYG------------------HFMESRKEC-I- 224

                   plgrygvtpeeianavlfLasdgasysvtgqtlnvdggi<-*
                   p+g +g +p +ian+++fLa+++ s ++ gq + +dgg
     R05D8.8   225 PCGKMG-QPIDIANIIAFLADRKLSSYIIGQSIVADGGS    262



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