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/F40F8.10
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Query: F40F8.10 CE05849 locus:rps-9 ribosomal protein S9 status:Confirmed SW:Q20228 protein_id:CAA93262.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domai 139.2 7.5e-38 1
S4 S4 domain 34.7 2.1e-07 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Ribosomal_S4 1/1 1 106 [. 1 111 [] 139.2 7.5e-38
S4 1/1 107 154 .. 1 48 [] 34.7 2.1e-07
Alignments of top-scoring domains:
Ribosomal_S4: domain 1 of 1, from 1 to 106: score 139.2, E = 7.5e-38
*->msR...yrgprlKliRRlgelpgLtakGhrDlklagkygkrlrpgqh
m+R +++++++ K +RR++e+++L+++ lkl+g++g l+++++
F40F8.10 1 MARlktVQSKVTKSPRRPFEKERLDQE----LKLIGTFG--LKNKRE 41
gwrvkktLskiDirklSrylirLqEKqKlRffYGnlleRqLlrygrlaek
+wrvk+tL+k+ rk++r+l++L+ K+++R+f+Gn+l+R+L++ g+l+e+
F40F8.10 42 VWRVKYTLAKV--RKAARELLTLEDKDPKRLFEGNALLRRLVKIGVLDET 89
kkKldgstgenllqlLE<-*
k+Kld+++g++++++LE
F40F8.10 90 KMKLDYVLGLKVEDFLE 106
S4: domain 1 of 1, from 107 to 154: score 34.7, E = 2.1e-07
*->mRLDkvLarlglasSrseArqlIrhGhVrVNGkvvkdpsyrvkpgDe
+RL++ +++lgla+S+ +Ar lI++ h+rV +vv+ ps++v+ + +
F40F8.10 107 RRLQTQVFKLGLAKSIHHARILIKQHHIRVRRQVVDVPSFIVRLDSQ 153
i<-*
F40F8.10 154 K 154