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/K07B1.7a
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Query:  K07B1.7a  CE11888    status:Partially_confirmed TR:O01886 protein_id:AAB54241.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
G-patch  G-patch domain                                  61.2    2.6e-16   1
rrm      RNA recognition motif. (a.k.a. RRM, RBD, or      5.7        3.3   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
rrm        1/1      37    58 ..     1    22 [.     5.7      3.3
G-patch    1/1     396   446 ..     1    45 []    61.2  2.6e-16

Alignments of top-scoring domains:
rrm: domain 1 of 1, from 37 to 58: score 5.7, E = 3.3
                   *->lfVgNLppdvteedLkdlFskf<-*
                        V+N+p++   +dL+++Fs f
    K07B1.7a    37    AIVRNIPKELHSKDLRKYFSRF    58

G-patch: domain 1 of 1, from 396 to 446: score 61.2, E = 2.6e-16
                   *->tsniGfklLqKMGWkeGqGLGkneqGivePieakikkdr......aG
                       ++iG  +L+KMGWk+G GLGkneqG+v P+ + +  d++++++++G
    K07B1.7a   396    QKGIGGSMLAKMGWKPGTGLGKNEQGRVVPVAVYVEEDGqsskekTG 442

                   LGae<-*
                   +G++
    K07B1.7a   443 FGYR    446



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