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/C48D1.3
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Query: C48D1.3 CE27109 locus:cho-1 choline transporter status:Confirmed TR:O02228 protein_id:CAB02847.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SSF Sodium:solute symporter family 38.9 2.3e-10 2
DUF163 Uncharacterized ACR, COG1576 0.7 5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SSF 1/2 47 202 .. 1 166 [. 5.8 0.67
DUF163 1/1 383 391 .. 1 9 [. 0.7 5
SSF 2/2 319 444 .. 318 447 .] 35.7 1.9e-09
Alignments of top-scoring domains:
SSF: domain 1 of 2, from 47 to 202: score 5.8, E = 0.67
*->YfLAGRsmtgfvlGlslaasyiSaasFvGlaGavaaSGlavvlyaig
LAGR+++ v + +a+ +++a G a a + Gl + g
C48D1.3 47 --LAGRNIGTLVGIFTMTATWVGGAYINGTAEALYNGGLLGCQAPVG 91
aLvgvllllwlvaprlrvltrlnlGalTmpdylskRFggkrkilvylSaL
+ ++ ++l+a++ r + G +Tm d + +g++ l y+ aL
C48D1.3 92 YAISLVMGGLLFAKKMR-----EEGYITMLDPFQHKYGQRIGGLMYVPAL 136
slLlyiftymsvqlvgGArLielalGlnYytAvlllaaltalYTviGGll
+ ++++ + l ++ + +lG++ ++v l a + YT++GG
C48D1.3 137 LGETFWTAAILSAL---GATLSVILGIDMNASVTLSACIAVFYTFTGGYY 183
AvswTDTiQavlMlfGali<-*
Av +TD +Q + + +G+ +
C48D1.3 184 AVAYTDVVQLFCIFVGLWV 202
DUF163: domain 1 of 1, from 383 to 391: score 0.7, E = 5
*->MkivlvsvG<-*
M+i +++vG
C48D1.3 383 MRIAIICVG 391
SSF: domain 2 of 2, from 319 to 444: score 35.7, E = 1.9e-09
*->niayptLavkLlppglaGlmLAvmlAAiMStltsqllssSsaftkDl
n++ p+ + L p ++a + L + AA+MS+ +s +ls++s f++ +
C48D1.3 319 NMVVPLVFQYLTPRWVAFIGLGAVSAAVMSSADSSVLSAASMFAHNI 365
YknirrkasatEkelvgrsriivLvvislaillavqpeqggQvlflvqla
k +r++ a+Eke+ + ri+ + v+ a + a+ ++ ++l l
C48D1.3 366 WKLTIRPH-ASEKEVIIVMRIAIICVGIMATIMALTIQSI---YGLWYLC 411
faglasaflpvilLaiFWkRvNeqGAlwGmiiG<-*
++ +p +l ++ +R N++G l+G +G
C48D1.3 412 ADLVYVILFPQLLCVVYMPRSNTYGSLAGYAVG 444