YRC Public Data Repository - Protein Structure Prediction

Protein:	FOCB_ECOLI
Organism:	Escherichia coli
Length:	282 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 FOCB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|227838883, gi... - gi\|227884131\|ref\|ZP_04001936.1\| formate transporter [Escherichia coli 83972], gi\|227838883\|gb\|EEJ493... gi\|117623122, gi... - gi\|117623122\|ref\|YP_852035.1\| formate transporter [Escherichia coli APEC O1], gi\|115512246\|gb\|ABJ003... gi\|226898318, gi... - gi\|237707108\|ref\|ZP_04537589.1\| formate transporter [Escherichia sp. 3_2_53FAA], gi\|226898318\|gb\|EEH... gi\|26246929, gi\|... - gi\|26246929\|ref\|NP_752969.1\| formate transporter [Escherichia coli CFT073], gi\|26107329\|gb\|AAN79512.... gi\|110641101, gi... - gi\|110641101\|ref\|YP_668831.1\| formate transporter [Escherichia coli 536], gi\|110342693\|gb\|ABG68930.1... gi\|91071579, gi\|... - gi\|91210005\|ref\|YP_539991.1\| formate transporter [Escherichia coli UTI89], gi\|91071579\|gb\|ABE06460.1...	292.0	[0..1]	[280..114]
gi\|82719699, gi\|... - gi\|82742945\|ref\|ZP_00905618.1\| Formate/nitrite transporter [Shewanella sp. W3-18-1], gi\|82719699\|gb\|... gi\|146293472, gi... - gi\|77815016\|ref\|ZP_00814261.1\| Formate/nitrite transporter [Shewanella putrefaciens CN-32], gi\|77809...	291.0	[0..13]	[276..35]
gi\|90310014, gi\|... - gi\|90408875\|ref\|ZP_01217014.1\| putative formate transporter 1 [Psychromonas sp. CNPT3], gi\|90310014\|...	290.0	[0..15]	[282..1]
gi\|69951558, gi\|... - gi\|69951558\|ref\|ZP_00639267.1\| Formate/nitrite transporter [Shewanella frigidimarina NCIMB 400], gi\|...	289.0	[0..15]	[278..29]
gi\|27358250, gi\|... - gi\|27366684\|ref\|NP_762211.1\| CBS domain-containing protein [Vibrio vulnificus CMCP6], gi\|27358250\|gb...	288.0	[0..1]	[281..1]
gi\|260364278\|ref... - putative formate transporter 1 [Vibrio parahaemolyticus K5030] gi\|260877641\|ref... - putative formate transporter 1 [Vibrio parahaemolyticus AN-5034] gi\|28809086, gi\|... - gi\|28900706\|ref\|NP_800361.1\| putative formate transporter 1 [Vibrio parahaemolyticus RIMD 2210633], ... gi\|28809086 - gi\|28809086\|dbj\|BAC62194.1\| putative formate transporter 1 [Vibrio parahaemolyticus RIMD 2210633]	287.0	[0..10]	[281..12]
gi\|37200939, gi\|... - gi\|37676397\|ref\|NP_936793.1\| putative formate transporter 1 [Vibrio vulnificus YJ016], gi\|37200939\|d...	287.0	[0..1]	[281..1]
gi\|110614460, gi... - gi\|110804912\|ref\|YP_688432.1\| formate transporter [Shigella flexneri 5 str. 8401], gi\|110614460\|gb\|A... gi\|24112312, gi\|... - ref\|NP_706822.1\| probable formate transporter (formate channel 1) [Shigella flexneri 2a str. 301], ...	287.0	[0..1]	[280..59]
gi\|262166953\|ref... - formate efflux transporter [Vibrio cholerae RC27] gi\|75825364, gi\|... - gi\|75825364\|ref\|ZP_00754800.1\| COG2116: Formate/nitrite family of transporters [Vibrio cholerae O395...	287.0	[0..10]	[281..12]
gi\|121591463, gi... - gi\|121591463\|ref\|ZP_01678737.1\| formate transporter 1, putative [Vibrio cholerae 2740-80], gi\|121546... gi\|153224824, gi... - gi\|153224824\|ref\|ZP_01954608.1\| formate transporter 1, putative [Vibrio cholerae MAK 757], gi\|124117... gi\|254849702, gi... - gi\|75831456\|ref\|ZP_00760719.1\| COG2116: Formate/nitrite family of transporters [Vibrio cholerae MO10... gi\|126509277, gi... - gi\|153820175\|ref\|ZP_01972842.1\| formate transporter 1, putative [Vibrio cholerae NCTC 8457], gi\|1265... gi\|262151207\|ref... - formate efflux transporter [Vibrio cholerae INDRE 91/1] gi\|255746681\|ref... - formate efflux transporter [Vibrio cholera CIRS 101] gi\|15601299, gi\|... - gi\|9657947\|gb\|AAF96442.1\| formate transporter 1, putative [Vibrio cholerae O1 biovar eltor str. N169... gi\|11355899 - pir\|\|D82446 probable formate transporter 1 VCA0540 [imported] - Vibrio cholerae (strain N16961 serog... gi\|227011251, gi... - gi\|227812109\|ref\|YP_002812119.1\| putative formate transporter 1 [Vibrio cholerae M66-2], gi\|22701125... gi\|229506289, gi... - gi\|229506289\|ref\|ZP_04395798.1\| formate efflux transporter [Vibrio cholerae BX 330286], gi\|229356640... gi\|229509592, gi... - gi\|229509592\|ref\|ZP_04399074.1\| formate efflux transporter [Vibrio cholerae B33], gi\|229353542\|gb\|EE... gi\|229346468, gi... - gi\|229516587\|ref\|ZP_04406034.1\| formate efflux transporter [Vibrio cholerae RC9], gi\|229346468\|gb\|EE... gi\|229605839, gi... - gi\|229605839\|ref\|YP_002876543.1\| formate efflux transporter [Vibrio cholerae MJ-1236], gi\|229372325\|...	286.0	[0..10]	[281..12]

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Predicted Domain #1

Region A:
Residues: [1-282]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRNKLSFDLQ LSARKAAIAE RIAAHKIARS KVSVFLMAMS AGVFMAIGFT FYLSVIADAP  60
   61 SSQALTHLVG GLCFTLGFIL LAVCGTSLFT SSVMTVMAKS RGVISWRTWL INALLVACGN 120
  121 LAGIACFSLL IWFSGLVMSE NAMWGVAVLH CAEGKMHHTF TESVSLGIMC NLMVCLALWM 180
  181 SYCGRSLCDK IVAMILPITL FVASGFEHCI ANLFVIPFAI AIRHFAPPPF WQLAHSSADN 240
  241 FPALTVSHFI TANLLPVMLG NIIGGAVLVS MCYRAIYLRQ EP

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.6
Match:	1fx8A
Description:	Glycerol uptake facilitator protein GlpF
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transporter activity	3.29716739878922	bayes_pls_golite062009
substrate-specific channel activity	2.94662039655367	bayes_pls_golite062009
channel activity	2.9414344431192	bayes_pls_golite062009
passive transmembrane transporter activity	2.9414344431192	bayes_pls_golite062009
transmembrane transporter activity	2.89191055188639	bayes_pls_golite062009
substrate-specific transporter activity	2.82037090563528	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.65037422078415	bayes_pls_golite062009
nitrate transmembrane transporter activity	1.47913191081789	bayes_pls_golite062009
water transmembrane transporter activity	1.45822447350992	bayes_pls_golite062009
water channel activity	1.30496704143853	bayes_pls_golite062009
anion transmembrane transporter activity	0.909897861102259	bayes_pls_golite062009
ion transmembrane transporter activity	0.843641784538908	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	0.665829718813242	bayes_pls_golite062009
organic acid transmembrane transporter activity	0.641796590324282	bayes_pls_golite062009
inorganic anion transmembrane transporter activity	0.619845435332912	bayes_pls_golite062009
amine transmembrane transporter activity	0.232492592199022	bayes_pls_golite062009
cation transmembrane transporter activity	0.156116095173723	bayes_pls_golite062009

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

Predicted functions: