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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm2/seq/F28B3.7
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: F28B3.7 CE29497 status:Partially_confirmed TR:O01789 protein_id:AAK21378.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SMC_N RecF/RecN/SMC N terminal domain 247.0 2.5e-70 1
SMC_C SMC family, C-terminal domain 145.3 4.7e-42 1
ABC_tran ABC transporter 28.5 4.4e-07 2
DUF683 Protein of unknown function (DUF683) 7.7 1.3 2
TMP TMP repeat 6.4 4.5 1
V-SNARE Vesicle transport v-SNARE protein 5.5 2.7 1
BAG BAG domain 5.1 5.9 1
Flagellar_rod Paraflagellar rod protein 4.6 2.5 1
Transposase_20 Transposase IS116/IS110/IS902 family 4.4 4.5 1
ATP-gua_PtransN ATP:guanido phosphotransferase, N-ter 4.0 9.4 1
ACOX Acyl-CoA oxidase 3.8 9.4 1
Glyco_transf_25 Glycosyltransferase family 25 (LPS bi 3.7 9.5 1
Glyco_tran_28_C Glycosyltransferase family 28 C-termi 3.0 8.6 1
lipoxygenase Lipoxygenase 1.1 8.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ABC_tran 1/2 37 58 .. 1 22 [. 12.6 0.017
SMC_N 1/1 14 173 .. 1 330 [] 247.0 2.5e-70
BAG 1/1 283 300 .. 73 90 .] 5.1 5.9
ACOX 1/1 350 373 .. 117 143 .] 3.8 9.4
DUF683 1/2 442 453 .. 1 12 [. 1.4 79
Transposase_20 1/1 438 458 .. 1 21 [. 4.4 4.5
lipoxygenase 1/1 701 713 .. 1 13 [. 1.1 8.8
V-SNARE 1/1 740 792 .. 1 59 [. 5.5 2.7
Flagellar_rod 1/1 802 832 .. 1 31 [. 4.6 2.5
TMP 1/1 905 915 .. 1 11 [] 6.4 4.5
DUF683 2/2 1046 1061 .. 1 16 [. 7.1 1.9
Glyco_tran_28_C 1/1 1048 1084 .. 141 179 .] 3.0 8.6
ATP-gua_PtransN 1/1 1106 1126 .. 64 84 .] 4.0 9.4
ABC_tran 2/2 1159 1227 .. 116 180 .. 15.9 0.002
Glyco_transf_25 1/1 1220 1230 .. 1 11 [. 3.7 9.5
SMC_C 1/1 1052 1242 .. 1 195 [. 145.3 4.7e-42
Alignments of top-scoring domains:
ABC_tran: domain 1 of 2, from 37 to 58: score 12.6, E = 0.017
*->GevlalvGpNGaGKSTLLklis<-*
+a++GpNG+GKS L+ +is
F28B3.7 37 TRFTAIIGPNGSGKSNLMDAIS 58
SMC_N: domain 1 of 1, from 14 to 173: score 247.0, E = 2.5e-70
*->mylkrielegFKSYagktvigpFspgFtaIvGPNGSGKSNilDAIlF
++l+++e+e+FKSY+gk++igpF ++FtaI+GPNGSGKSN++DAI+F
F28B3.7 14 GTLHTLEIENFKSYKGKHTIGPF-TRFTAIIGPNGSGKSNLMDAISF 59
VLGegrsakkLRaerlsdLIhkgsggkppanksAeVtitFdnedkenise
VLGe + ++LR++++ dLIh + +kp+a k++ Vt+ ++++d+
F28B3.7 60 VLGE-KP-SSLRVRKYADLIHGAPINKPVA-KKCRVTMNYKYSDG----- 101
lgqhirdgpldeenpevtItRrvyrlglgdGstSeYyiWknlrlNgkrvt
+v + r + +G+ Se+++ +g++vt
F28B3.7 102 ---------------KVKAFTRGVN----NGT-SEHLL------DGQTVT 125
klkevqelLesagIdiElatLangvskyRayaWCFHWDkELiLleqIswR
+ +++ +es++I i
F28B3.7 126 S-AAYSQEMESINIFI---------------------------------- 140
aeYeaLapeiETCqlFLPElLtvSFqrGWeKetdYaEvLarnFERDkqLg
F28B3.7 - -------------------------------------------------- -
YTqGPqKADLRlRAnGlPVEDvLSRGQLKLknpyfiilQGeyltrekgrh
k+++f+++QG
F28B3.7 141 ------------------------------KARNFLVYQGA--------- 151
ClYLvedIasmkPkeRreldeGLlellEEisGt<-*
+e+Ia+++PkeR+ +l+EE+s++
F28B3.7 152 ----IENIAMKTPKERT-------QLFEELSRS 173
BAG: domain 1 of 1, from 283 to 300: score 5.1, E = 5.9
*->KrlvrkiqalLeklDskk<-*
+++ r++q++ klD+k+
F28B3.7 283 RKALREVQKMTRKLDQKE 300
ACOX: domain 1 of 1, from 350 to 373: score 3.8, E = 9.4
*->kqqnPlnntrevkPsYekaLkpmlnra<-*
k ++ l++ k++Ye+ +++m++r
F28B3.7 350 KSKKELEKK---KAAYEAEIQDMMQRG 373
DUF683: domain 1 of 2, from 442 to 453: score 1.4, E = 79
*->mtdieeLkkevk<-*
+t i++L++++k
F28B3.7 442 ETQIATLAQRIK 453
Transposase_20: domain 1 of 1, from 438 to 458: score 4.4, E = 4.5
*->lreldeqikdldaeieellrl<-*
+r++ +qi++l+++i+e+ ++
F28B3.7 438 VRRIETQIATLAQRIKETEEE 458
lipoxygenase: domain 1 of 1, from 701 to 713: score 1.1, E = 8.8
*->papLkkYReeELe<-*
+a L+k+R+ ELe
F28B3.7 701 IADLQKHRRRELE 713
V-SNARE: domain 1 of 1, from 740 to 792: score 5.5, E = 2.7
*->IeslLeelqelldqMdlevsrelgppslAqrasalskLrrhksdLqd
e +Le+lq l+ M+ e ++l ++ + + + +kL+r s+L+
F28B3.7 740 -EMQLERLQNELEGMTAEM-NML---PP-RISNCQEKLERSESTLKS 780
lttefretrsRi<-*
l+t+ +e+ +Ri
F28B3.7 781 LQTKSNEVADRI 792
Flagellar_rod: domain 1 of 1, from 802 to 832: score 4.6, E = 2.5
*->leersrlkdalrrlkqecesdLknvhdaiqk<-*
+ ++ + r+kqe e++L+ +d+iqk
F28B3.7 802 IASIRDYENREMRIKQEMEDKLRSFDDDIQK 832
TMP: domain 1 of 1, from 905 to 915: score 6.4, E = 4.5
*->WngIksffsga<-*
Wn +k++++ a
F28B3.7 905 WNEVKKIAQVA 915
[output cut off at A = 10 top alignments]