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/F17C11.8
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Query:  F17C11.8  CE05655    status:Partially_confirmed TR:Q19519 protein_id:CAA96630.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
Vps36    Vacuolar protein sorting 36                    608.1   5.2e-179   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
Vps36      1/1     173   430 .]     1   286 []   608.1 5.2e-179

Alignments of top-scoring domains:
Vps36: domain 1 of 1, from 173 to 430: score 608.1, E = 5.2e-179
                   *->lrereWerlsksestkvkrasspvleglydregrlRkmvGIaGIERk
                      +r+++W+r+s+++s++++rass+           lR +vGI+GIER+
    F17C11.8   173    VRRKTWQRSSSGSSSSGSRASSN-----------LR-SVGISGIERR 207

                   leeqlkkTdktiveAFqDLsaLMskAKeMVsLsksiaeKirsAPskkGei
                   l+e+++kT++ti++AF+D+s+LM++A+eMV+Lsksi+eK+r   s+kGei
    F17C11.8   208 LAENHQKTHETITQAFDDMSKLMETAREMVALSKSISEKVR---SRKGEI 254

                   sdDEtirfKsEmqqyllSLGildPVTkdnfgvSaNSslYfqeLaKqisev
                   s+DEti+fKs    yllSLG++dPVTk++f++S+  s+Yfq+LaK+is+v
    F17C11.8   255 SEDETIAFKS----YLLSLGVSDPVTKSTFVGSD--SEYFQKLAKEISDV 298

                   LrtpLeedGGmvsLTdvYcrvNRARGmELlSPeDlvnACelleslevPir
                   L+++++e+GGm++L++vYcr+NRARGmELlSPeD++nAC++l+++++P++
    F17C11.8   299 LYEHIKENGGMCALPEVYCRINRARGMELLSPEDVMNACGALSRINSPLE 348

                   LrkFdSGvmViQLkShsdeevvlsaleeVskketlRvGvtAeelAkrLgi
                   L++F+SGv+V+QLkS+s++++v+++le+Vsk+e++    +A+elA++Lgi
    F17C11.8   349 LHRFPSGVLVVQLKSASMDSTVGQTLEFVSKLERA----SANELAESLGI 394

                   SvllAkERLLqAEkkGliCRDdSvEGGSSLrFYpNlFme<-*
                   +v+lA+ERLL+AE++GliCRDdS+EG   L+FYpN+Fme
    F17C11.8   395 TVILARERLLAAEESGLICRDDSIEG---LLFYPNRFME    430



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