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/F17A9.4
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Query: F17A9.4 CE09448 status:Partially_confirmed TR:O16214 protein_id:AAB65281.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
oxidored_FMN NADH:flavin oxidoreductase / NADH oxidas 145.8 6e-44 1
Gag_p24 gag gene protein p24 (core nucleocapsid 5.2 3.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Gag_p24 1/1 329 344 .. 1 17 [. 5.2 3.8
oxidored_FMN 1/1 116 370 .. 92 371 .] 145.8 6e-44
Alignments of top-scoring domains:
Gag_p24: domain 1 of 1, from 329 to 344: score 5.2, E = 3.8
*->pktLkelkkaveqyGpg<-*
++t+k++++a+e+ G++
F17A9.4 329 FRTVKAMVEAIEN-GAT 344
oxidored_FMN: domain 1 of 1, from 116 to 370: score 145.8, E = 6e-44
*->HenGskigvQlwhlGreakaeyledapkleKvlrvdgpsdpvnldeq
++ G++++vQl h+Gr+++ + + ++sd+ +e
F17A9.4 116 KQDGALAVVQLSHGGRQTPITVEPNPW---------SASDVKLSGER 153
lsslakesgnelYiareLtkeeIk.eiiqeFvdAAkrAveiAGfDgVEiH
+ g + + L+ e Ik++ii+ Fv AAk A e GfDgVE+H
F17A9.4 154 ---RFTAFGQP----VPLSTEQIKtQIIDRFVYAAKFAYE-TGFDGVELH 195
gAhGYLldqFLsPgsNkRtDeYGcGSlENRaRFpLEvvdaVkeavGedrp
gAhGYLl qF sP +NkRtD+YG GS+ENR R LE+ da++ ++e
F17A9.4 196 GAHGYLLAQFTSPTTNKRTDQYG-GSIENRQRIILEIYDAIRAEIPEST- 243
GAFLigyRlSpdevveggntlaEtivvaqfaylleelgvrvldgsrlayi
F++g+ e+ e+g+t+ ++ + ++ e g +++ +s+++y
F17A9.4 244 -GFMVGIKTNSVEFQEQGTTVDDA---KVMCQVYEDKGFDFVELSGGTYE 289
haiep.rvtppfpvevggdqeientefikkvwkiP.vitVGrindpePFk
++ + ++ +++e++ + e +e+i+ v k+ v+ +G++++
F17A9.4 290 KLAFHhMRDSTRNREAF--FL-EFAEKIRPVFKKTvVYLTGGFRTVK--A 334
aaeivaegradLVamGRpflADPdLvkKakeGrpde<-*
+ e++++g +++ GRp++A PdL+kK+ eG+
F17A9.4 335 MVEAIENGATQGIGLGRPITAEPDLPKKIIEGLVAS 370