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:            hmm1/seq/C46C2.2
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Query:  C46C2.2  CE03081   transport protein status:Partially_confirmed TR:Q18655 protein_id:CAA92589.1

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
sugar_tr       Sugar (and other) transporter             28.2    2.1e-07   2
Multi_Drug_Res Small Multidrug Resistance protein         8.6       0.86   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
Multi_Drug_Res   1/1     169   192 ..    68    91 ..     8.6     0.86
sugar_tr         1/2     117   258 ..    62   223 ..    27.2  4.4e-07
sugar_tr         2/2     405   490 ..   397   488 .]     3.5      2.8

Alignments of top-scoring domains:
Multi_Drug_Res: domain 1 of 1, from 169 to 192: score 8.6, E = 0.86
                   *->sGiGtvlttlvgillFgEslslkk<-*
                      +GiG+++t +vg+  F E +s ++
     C46C2.2   169    TGIGIAGTMIVGWAYFSELVSPHQ    192

sugar_tr: domain 1 of 2, from 117 to 258: score 27.2, E = 4.4e-07
                   *->lGrliGslfaGklgdrfGRkksllialvlfviGallsgaapgytTiG
                      +G liG +++G+ +d +GRkk+++++ ++ + +  ls+  +
     C46C2.2   117    VGVLIGNIILGYVADQIGRKKTFILSMLIGIPSLSLSATFN------ 157

                   lwafyllivGRvlvGlgvGgasvlvPmYisEiAPkalRGalgslyqlait
                     +++ + ++R l+G+g+ g + +   Y sE   ++ R +l ++ ++a
     C46C2.2   158 --SIAAFYIFRALTGIGIAGTMIVGWAYFSELVSPHQRFKLRTFSNWAN- 204

                   iGilvAaiiglglnktnndsalnswgWRiplglqlvpalllligl.lflP
                        A i+   ++++ ++       WR++ ++++v++l+ l+++ + lP
     C46C2.2   205 -----ARIMLTLVALFTGE-------WRLSSHVSAVISLITLAIVyFILP 242

                   ESPRwLvekgkleeAr<-*
                   ES  wL  kg++eeA+
     C46C2.2   243 ESHIWLRKKGRYEEAE    258

sugar_tr: domain 2 of 2, from 405 to 490: score 3.5, E = 2.8
                   *->algwGpipwvilsElFPtkvRskalalataanwlanfiigflfpyit
                      ++ w p+  ++ sEl+Pt vR++ +a +  ++++an+ ++     ++
     C46C2.2   405    SIVWEPCYLCA-SELMPTDVRATSTASCSIVGRFANIGAS-----ML 445

                   gaiglalggyvflvfagllvlfilfvfffvPETkGrtLEeieelf<-*
                   + ++   +++v  +   l++  ++ ++ff+ ETk+ +L++  +
     C46C2.2   446 SGLKTVYEPGVHMISISLGLTNVVAAYFFLQETKNCSLDKAGTSA    490



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