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/F54C9.10
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Query: F54C9.10 CE02250 locus:arl-1 GTP-binding ADP-ribosylation factor status:Partially_confirmed SW:Q20758 protein_id:CAA90255.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
arf ADP-ribosylation factor family 386.3 3.1e-112 1
Thymidylate_kin Thymidylate kinase 7.7 0.073 1
PadR Transcriptional regulator PadR-like f 7.1 1.2 1
ABC_tran ABC transporter 6.3 1.2 1
SRP54 SRP54-type protein, GTPase domain 4.9 2.6 1
SKI Shikimate kinase 4.4 4.4 1
DUF258 Protein of unknown function, DUF258 3.4 6.1 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SRP54 1/1 14 31 .. 1 18 [. 4.9 2.6
SKI 1/1 17 32 .. 1 16 [. 4.4 4.4
ABC_tran 1/1 16 33 .. 1 18 [. 6.3 1.2
Thymidylate_kin 1/1 21 36 .. 1 16 [. 7.7 0.073
PadR 1/1 109 128 .. 1 21 [. 7.1 1.2
DUF258 1/1 147 176 .. 1 30 [. 3.4 6.1
arf 1/1 2 179 .. 1 191 [] 386.3 3.1e-112
Alignments of top-scoring domains:
SRP54: domain 1 of 1, from 14 to 31: score 4.9, E = 2.6
*->kkpnVillVGlqGsGKTT<-*
+ il++Gl G+GKTT
F54C9.10 14 AREMRILILGLDGAGKTT 31
SKI: domain 1 of 1, from 17 to 32: score 4.4, E = 4.4
*->rnifLIGmmGaGKsTv<-*
+ i + G+ GaGK+T+
F54C9.10 17 MRILILGLDGAGKTTI 32
ABC_tran: domain 1 of 1, from 16 to 33: score 6.3, E = 1.2
*->GevlalvGpNGaGKSTLL<-*
++ ++G GaGK+T+L
F54C9.10 16 EMRILILGLDGAGKTTIL 33
Thymidylate_kin: domain 1 of 1, from 21 to 36: score 7.7, E = 0.073
*->iEGiDGaGKTTqaelL<-*
i G+DGaGKTT++ +L
F54C9.10 21 ILGLDGAGKTTILYRL 36
PadR: domain 1 of 1, from 109 to 128: score 7.1, E = 1.2
*->ellkGllqllvLalLAeenqP<-*
+l+ lq++vLa+LA+ q+
F54C9.10 109 MLQEDELQGAVLAVLANK-QD 128
DUF258: domain 1 of 1, from 147 to 176: score 3.4, E = 6.1
*->yrniGYevlftSaktgdGldeLaevLrgki<-*
+rn ++++tSa g+Gld+ + L++++
F54C9.10 147 LRNRTIQIFKTSASKGEGLDPAMDWLANQL 176
arf: domain 1 of 1, from 2 to 179: score 386.3, E = 3.1e-112
*->GlgflkiflkllglwnKEmRILiLGLDnAGKTTILykLklgeivtti
+g+ ++f+ l+g +EmRILiLGLD+AGKTTILy+L++ge+vtti
F54C9.10 2 -GGVMSYFRGLFG--AREMRILILGLDGAGKTTILYRLQVGEVVTTI 45
PTiGFNvEtveykNikFtvWDvGGQeslRPlWrnYfpnTdavIfVVDSaD
PTiGFNvE+veykN+kF+vWD+GGQ+s+RP+Wr+Y++nTda+I+VVDSaD
F54C9.10 46 PTIGFNVEQVEYKNLKFQVWDLGGQTSIRPYWRCYYANTDAIIYVVDSAD 95
reRieeakeELhaLLneeeLadAplLifANKQDlpgAmseaEireaLgLh
r+R +++++EL+ +L+e+eL++A+l ++ANKQD+ g+++e E+ +aLgL
F54C9.10 96 RDRVGISRQELATMLQEDELQGAVLAVLANKQDIAGCLTETEVYKALGLD 145
elkgskgkVtlegdRpWeiqgcsAvkGeGLyEGldWLsnnikkr<-*
l+ + R+++i+++sA kGeGL+ ++dWL+n+++ +
F54C9.10 146 ALR-N---------RTIQIFKTSASKGEGLDPAMDWLANQLQQK 179