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: hmm1/seq/B0393.1
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Query: B0393.1 CE00854 locus:rps-0 40S ribosomal protein status:Confirmed SW:P46769 protein_id:CAA86061.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Ribosomal_S2 Ribosomal protein S2 330.3 2.2e-95 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Ribosomal_S2 1/1 18 186 .. 1 216 [] 330.3 2.2e-95
Alignments of top-scoring domains:
Ribosomal_S2: domain 1 of 1, from 18 to 186: score 330.3, E = 2.2e-95
*->mlaAgvHLGhrnrkwnpkmqpYiygeR.kGihIInLeKTwekLkeAc
+la+++HLG++n +n++mq+Y+y++R +G +IIn++KTwekL++A+
B0393.1 18 LLATQAHLGSTN--LNFQMQQYVYKRRfDGPNIINVKKTWEKLLLAA 62
rliaaiaskgkdilfVgTrpeaqravlkfAkkTgatyvngRWlgGmLTNW
r+iaa+++ ++d+++V++rp+aqra+lkfA++Tgat++ gR+ +G+LTN
B0393.1 63 RAIAAVEN-PADVVVVSARPYAQRALLKFAAHTGATAIFGRFSPGCLTN- 110
ktiktrikklkdlsaekkGtfnsLtKkEalmlkrqlsklqkyfggIkdmt
++qk f++
B0393.1 111 -------------------------------------QIQKTFKE----- 118
glPDlliviDprkdhqAiqEasklnIPtIalvDTdsdpdlvDipIPaNDD
P+ll++ Dpr dhqA++Eas++++P+I++v+T+s+++l+Di++P+N++
B0393.1 119 --PRLLVISDPRIDHQAVTEASYVGVPVISFVNTESPLKLIDIGVPCNNK 166
sirSIgLilnlLaravlegr<-*
+ rSIgL++++Lar++l +r
B0393.1 167 GERSIGLMWWMLAREILILR 186