YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213162899
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E00-7866
Length:	1049 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|213162899.

Description	E-value	Query Range	Subject Range
gi\|62126720, gi\|... - gi\|62179087\|ref\|YP_215504.1\| acridine efflux system protein [Salmonella enterica subsp. enterica ser...	0.0	[1..1049]	[1..1049]
gi\|206707757, gi... - gi\|207855954\|ref\|YP_002242605.1\| acriflavin resistance protein B [Salmonella enterica subsp. enteric... gi\|197940656, gi... - gi\|198246140\|ref\|YP_002214428.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteri... gi\|199602560, gi... - gi\|200390115\|ref\|ZP_03216726.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteric... gi\|197213307, gi... - gi\|197249604\|ref\|YP_002145456.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteri... gi\|197264579, gi... - gi\|197264579\|ref\|ZP_03164653.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteric... gi\|194470936, gi... - gi\|194470936\|ref\|ZP_03076920.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteric... gi\|194736378, gi... - gi\|194736378\|ref\|YP_002113506.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteri... gi\|194405349, gi... - gi\|194446686\|ref\|YP_002039718.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteri... gi\|194407720, gi... - gi\|194449416\|ref\|YP_002044509.1\| acriflavine resistance protein B [Salmonella enterica subsp. enteri... gi\|168465570, gi... - gi\|195631676\|gb\|EDX50196.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|238911395 - gi\|238911395\|ref\|ZP_04655232.1\| acriflavin resistance protein B [Salmonella enterica subsp. enterica... gi\|205343984, gi... - gi\|205343984\|gb\|EDZ30748.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|197289507, gi... - gi\|197289507\|gb\|EDY28870.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|205340025, gi... - gi\|205340025\|gb\|EDZ26789.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|167990460, gi... - gi\|205330914\|gb\|EDZ17678.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|168231464, gi... - gi\|205334152\|gb\|EDZ20916.1\| acriflavine resistance protein B [Salmonella enterica subsp. enterica se... gi\|161615329, gi... - gi\|161615329\|ref\|YP_001589294.1\| hypothetical protein SPAB_03099 [Salmonella enterica subsp. enteric... lcl\|NC_016856.1_... - [gene=acrB] [protein=acridine efflux pump] [protein_id=YP_005236172.1] [location=complement(529941..... gi\|16418982, gi\|... - gi\|16763855\|ref\|NP_459470.1\| acridine efflux pump [Salmonella typhimurium LT2], gi\|16418982\|gb\|AAL19...	0.0	[1..1049]	[1..1049]
MEXB_PSEAE - Multidrug resistance protein MexB OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101... MEXB_PSEAE - Multidrug resistance protein mexB OS=Pseudomonas aeruginosa GN=mexB PE=1 SV=2 gi\|116054157, gi... - gi\|116054157\|ref\|YP_788600.1\| RND multidrug efflux transporter MexB [Pseudomonas aeruginosa UCBPP-PA...	0.0	[1..1046]	[1..1044]
gi\|56414370, gi\|... - gi\|56414370\|ref\|YP_151445.1\| acriflavin resistance protein B [Salmonella enterica subsp. enterica se...	0.0	[1..1049]	[1..1049]
gi\|481840, gi\|438854 - pir\|\|S39630 multidrug-efflux transport protein B - Pseudomonas aeruginosa, gi\|438854\|gb\|AAA74437.1\|...	0.0	[1..1046]	[1..1044]
gi\|13539232 - gi\|13539232\|emb\|CAC35725.1\| AcrB protein [Enterobacter aerogenes]	0.0	[1..1048]	[1..1047]
gi\|148807120, gi... - gi\|148807120\|gb\|ABR13271.1\| AcrB [Enterobacter cloacae], gi\|112182849\|emb\|CAL18626.1\| AcrB protein [...	0.0	[1..1048]	[1..1047]
gi\|73537922, gi\|... - gi\|73537922\|ref\|YP_298289.1\| hydrophobe/amphiphile efflux-1 HAE1 [Ralstonia eutropha JMP134], gi\|721...	0.0	[1..1048]	[1..1046]
gi\|82545637, gi\|... - gi\|82545637\|ref\|YP_409584.1\| integral transmembrane protein [Shigella boydii Sb227], gi\|81247048\|gb\|...	0.0	[1..1034]	[1..1033]
gi\|75229208, gi\|... - gi\|75229208\|ref\|ZP_00715776.1\| COG0841: Cation/multidrug efflux pump [Escherichia coli B7A], gi\|1911... gi\|209919942, gi... - gi\|209919942\|ref\|YP_002294026.1\| aminoglycoside/multidrug efflux system [Escherichia coli SE11], gi\|...	0.0	[1..1040]	[1..1037]

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Predicted Domain #1

Region A:
Residues: [1-1049]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPNFFIDRPI FAWVIAIIIM LAGGLAILKL PVAQYPTIAP PAVTISATYP GADAKTVQDT  60
   61 VTQVIEQNMN GIDNLMYMSS NSDSTGTVQI TLTFESGTDA DIAQVQVQNK LQLAMPLLPQ 120
  121 EVQQQGVSVE KSSSSFLMVV GVINTDGTMT QEDISDYVAA NMKDPISRTS GVGDVQLFGS 180
  181 QYAMRIWMNP TELTKYQLTP VDVINAIKAQ NAQVAAGQLG GTPPVKGQQL NASIIAQTRL 240
  241 TSTDEFGKIL LKVNQDGSQV RLRDVAKIEL GGENYDVIAK FNGQPASGLG IKLATGANAL 300
  301 DTATAIRAEL KKMEPFFPPG MKIVYPYDTT PFVKISIHEV VKTLVEAIIL VFLVMYLFLQ 360
  361 NFRATLIPTI AVPVVLLGTF AVLAAFGFSI NTLTMFGMVL AIGLLVDDAI VVVENVERVM 420
  421 TEEGLPPKEA TRKSMGQIQG ALVGIAMVLS AVFIPMAFFG GSTGAIYRQF SITIVSAMAL 480
  481 SVLVALILTP ALCATMLKPV AKGDHGEGKK GFFGWFNRLF DKSTHHYTDS VGNILRSTGR 540
  541 YLLLYLIIVV GMAYLFVRLP SSFLPDEDQG VFLTMVQLPA GATQERTQKV LDEVTDYYLN 600
  601 KEKANVESVF AVNGFGFAGR GQNTGIAFVS LKDWADRPGE KNKVEAITQR ATAAFSQIKD 660
  661 AMVFAFNLPA IVELGTATGF DFELIDQAGL GHEKLTQARN QLFGEVAKYP DLLVGVRPNG 720
  721 LEDTPQFKID IDQEKAQALG VSISDINTTL GAAWGGSYVN DFIDRGRVKK VYVMSEAKYR 780
  781 MLPDDINDWY VRGSDGQMVP FSAFSSSRWE YGSPRLERYN GLPSMEILGQ AAPGKSTGEA 840
  841 MAMMEELASK LPSGIGYDWT GMSYQERLSG NQAPALYAIS LIVVFLCLAA LYESWSIPFS 900
  901 VMLVVPLGVI GALLAATFRG LTNDVYFQVG LLTTIGLSAK NAILIVEFAK DLMDKEGKGL 960
  961 VEAMLEAVRM RLRPILMTSL AFMLGVMPLV ISSGAGSGAQ NAVGTGVLGG MVTATVLAIF1020
 1021 FVPVFFVVVR RRFSRKSEDI EHSHSTEHR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1oy6A
Description:	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains; Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains; Multidrug efflux transporter AcrB transmembrane domain
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits