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: hmm4/seq/M195.3
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Query: M195.3 CE03516 NH(4+) transporter status:Partially_confirmed SW:Q21565 protein_id:CAA91293.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Ammonium_transp Ammonium Transporter Family 627.1 3e-195 1
Rhomboid Rhomboid family 4.2 6 1
FeoB Ferrous iron transport protein B 3.7 1.7 1
Big_1 Bacterial Ig-like domain (group 1) 3.7 7 1
MadL Malonate transporter MadL subunit 3.6 8.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FeoB 1/1 130 154 .. 714 738 .] 3.7 1.7
Rhomboid 1/1 203 222 .. 142 161 .] 4.2 6
Big_1 1/1 273 292 .. 87 107 .] 3.7 7
MadL 1/1 323 356 .. 92 127 .] 3.6 8.4
Ammonium_transp 1/1 39 451 .. 1 459 [] 627.1 3e-195
Alignments of top-scoring domains:
FeoB: domain 1 of 1, from 130 to 154: score 3.7, E = 1.7
*->kwaaisvlyslvlAyvlglifyqlg<-*
+w+ +s+l+ l+lA+++++i ++
M195.3 130 GWSYASFLFQLSLATTASTIVSGAV 154
Rhomboid: domain 1 of 1, from 203 to 222: score 4.2, E = 6
*->HlgGflaGlllgfillrrpr<-*
Hl G + Gl+++ +l +r++
M195.3 203 HLVGGIIGLIATVFLKPRRN 222
Big_1: domain 1 of 1, from 273 to 292: score 3.7, E = 7
*->tytVtAslenggatsvdaktV<-*
++t++As+ ggat+ + ++V
M195.3 273 VATIMASIG-GGATAITISFV 292
MadL: domain 1 of 1, from 323 to 356: score 3.6, E = 8.4
*->plALLAgvaAvvVavllIpllsksgGDrgtkepAvE<-*
+ AL g + v + ++ pll++++ +++ v+
M195.3 323 WHALVIGSISSVFSIAVLPLLDRLH--IDDPVGIVP 356
Ammonium_transp: domain 1 of 1, from 39 to 451: score 627.1, E = 3e-195
*->awiLisaalViFMMqpGfalLesGlvrsKnvlNfilmknfvDlaigi
a+++is++++iF+M+ Gf+lLesG+v++K+++N i++kn+vD+ +g
M195.3 39 AVWIISSSFIIFTMHSGFGLLESGSVSAKDEVN-IMVKNVVDVVFG- 83
CvlayvlfGyslaFGdsyGepgngfiGnGlvwlflk.flgvsaagiqdgt
+l y+++G+++++Gd + e+ n+++G+G ++f+++++ +++ ++ ++
M195.3 84 -GLSYWSCGFGFSYGDIP-EWRNPYVGFG--KFFYDpTRDYGTRETINQE 129
lpdglpfflFQlmFAaktaatIisGavAERikfsayllfsallgtlvYpp
++ +++ flFQl+ A ta tI+sGavAER+k+++y+l +++++ ++ p
M195.3 130 GWSYAS-FLFQLSLAT-TASTIVSGAVAERAKLKSYILLGCIVILIQALP 177
vaHWvWgelvgGwlaklgvlvlilktkaiDFAGstvVHivGGvaGLaaAl
aHWvW++ +G+++k gv+ DFAG+++VH+vGG++GL a++
M195.3 178 -AHWVWDK--EGVFYKKGVV---------DFAGCSAVHLVGGIIGLIATV 215
vLGpRigrfpdDetgkpeairpHnlpfavLGtflLWfGWfGFNaGSalta
+L+pR++rf +++ +++++++ a+LGtflLW+GWfG NaGS++++
M195.3 216 FLKPRRNRF-----NEDSVHQMSSPTNALLGTFLLWWGWFGINAGSVWGI 260
ngraaaigaGWstVaraavnTnlAaAaGaltwllisrlktGKptvlglaN
+g+++ +g araav+T++A+++G++t++ is++kt+K++v +l+N
M195.3 261 TGGRWRLG------ARAAVATIMASIGGGATAITISFVKTKKLQVNFLIN 304
GalAGLVAIGTpacgvvsPwgAliIGlvAGvlsvlgvkyltPkLkeklgi
G+l++ V+I T+ c+v Pw+Al+IG++++v+s+++ + L+++l+i
M195.3 305 GILSSIVSI-TAICAVSRPWHALVIGSISSVFSIAVLP-----LLDRLHI 348
DDpldvfpvHGvgGiwGgiavGiFaapkvnnigFpeeygastsgisgGll
DDp++++p+H++++iwG+iavGiF+ ++++++ s+++++ Gll
M195.3 349 DDPVGIVPIHLTSSIWGMIAVGIFCEEDKYLG--------SATNNRSGLL 390
ygnggfkqLgvQligiavilayafgvtfilakllgltlggKLRvseeeEk
y ++ f++L+vQl++ a+il+y+++++f ++l++++++g LRv+ +eE+
M195.3 391 YSWS-FELLWVQLQCTAAILIYSATTGFLALFLISKSPLG-LRVTDYEEQ 438
vGlDlaeHgetaY<-*
+G+D++eHg ++
M195.3 439 IGADVIEHGLAGT 451