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/M110.4
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Query:  M110.4  CE02277   eukaryotic initiation factor status:Partially_confirmed TR:Q21531 protein_id:CAA90261.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
MIF4G    MIF4G domain                                   200.6    1.2e-57   1
SlyX     SlyX                                             2.4        1.5   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
SlyX       1/1     365   373 ..     1     9 [.     2.4      1.5
MIF4G      1/1     518   748 ..     1   230 []   200.6  1.2e-57

Alignments of top-scoring domains:
SlyX: domain 1 of 1, from 365 to 373: score 2.4, E = 1.5
                   *->eLeaRleeL<-*
                      +Le R+eeL
      M110.4   365    ALEKRIEEL    373

MIF4G: domain 1 of 1, from 518 to 748: score 200.6, E = 1.2e-57
                   *->ekkvkgllnkLsespenfekiikellkllmsdlrenDPennkellke
                      +kkv++l+nk++  p++  ++ +e++++++s+        n+++l++
      M110.4   518    CKKVRSLMNKVT--PTSQRPLTEEFISYNVSS--------NDAQLAQ 554

                   lielifekaveepnfipayArLcalLnsknp.....kteFgklllnrlqe
                   ++e++f+kaveep+f+ +yA++c + + +  +++++k+ F+ ++l+r+q+
      M110.4   555 VVEIVFDKAVEEPKFCALYAEMCKAQANHELsqtggKSAFRNKVLTRTQM 604

                   eFekr..................eleaeleeeeesdrrrrlglvrFlgEL
                    F+ +++ + ++    ++++++ ++e++l+ee++++rrr+ g+++F+g+L
      M110.4   605 TFQDKkdidadklaiiekeedpvKKELMLAEEKQKFRRRKFGVMTFMGYL 654

                   ynfqvltekiileclkelledlteedlqdqvrdeeslecllslLetiGkd
                   y +q+l++ki++ c +el+++ +++d +++++dees++c l+l+et+G +
      M110.4   655 YRNQLLSTKIVQTCTFELFNSIKDQDIKKEDVDEESIHCGLQLIETVGVM 704

                   Len.sekspklmdellerlqdillkrdkkhvrvesepelssrirfmledl
                   L++++++++ ++d+++++l++++               +s++irfm+++l
      M110.4   705 LDKsKDSTTVFLDQWFQKLEAAKPY-------------CSNKIRFMIMNL 741

                   ielrknk<-*
                   +elrk+k
      M110.4   742 MELRKDK    748



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