YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16502522, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi
Length:	264 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|16502522, gi|....

Description	E-value	Query Range	Subject Range
gi\|62127859, gi\|... - gi\|62180226\|ref\|YP_216643.1\| transcriptional regulation of aerobic, anaerobic respiration, osmotic b...	1.0E-55	[1..264]	[18..281]
gi\|197093815, gi... - gi\|197362338\|ref\|YP_002141975.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella en... gi\|224468375, gi... - gi\|224583848\|ref\|YP_002637646.1\| fumarate and nitrate reduction regulatory protein [Salmonella enter... gi\|16420187 - gi\|16420187\|gb\|AAL20578.1\| transcriptional regulator [Salmonella enterica subsp. enterica serovar Ty... gi\|56413415, gi\|... - gi\|56413415\|ref\|YP_150490.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica ...	4.0E-55	[1..264]	[1..264]
gi\|237705364, gi... - gi\|237705364\|ref\|ZP_04535845.1\| fumarate and nitrate reduction regulatory protein [Escherichia sp. 3... gi\|91210628, gi\|... - gi\|91210628\|ref\|YP_540614.1\| fumarate and nitrate reduction regulatory protein [Escherichia coli UTI... gi\|26247669, gi\|... - gi\|26247669\|ref\|NP_753709.1\| Fumarate and nitrate reduction Regulatory protein [Escherichia coli CFT...	5.0E-55	[1..264]	[6..269]
gi\|117623587, gi... - gi\|117623587\|ref\|YP_852500.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia coli... gi\|110641568, gi... - gi\|110641568\|ref\|YP_669298.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia coli... gi\|209911838, gi... - gi\|209918579\|ref\|YP_002292663.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|124527912, gi... - gi\|124527912\|ref\|ZP_01699301.1\| transcriptional regulator, Crp/Fnr family [Escherichia coli B], gi\|1... gi\|227886229, gi... - gi\|227886229\|ref\|ZP_04004034.1\| CRP/FNR family transcriptional regulator [Escherichia coli 83972], g...	6.0E-55	[1..264]	[1..264]
gi\|6759981 - gi\|6759981\|gb\|AAF28139.1\|AF153317_36 Fnr [Shigella dysenteriae]	1.0E-54	[1..264]	[1..264]
FNR_SALTI - Fumarate and nitrate reduction regulatory protein OS=Salmonella typhi GN=fnr PE=3 SV=2 gi\|213419278 - gi\|213419278\|ref\|ZP_03352344.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella ent... gi\|161501943 - gi\|161501943\|ref\|NP_455844.2\| fumarate/nitrate reduction transcriptional regulator [Salmonella enter... gi\|161486799 - gi\|161486799\|ref\|NP_805346.2\| fumarate/nitrate reduction transcriptional regulator [Salmonella enter... FNR_SALTI - Fumarate and nitrate reduction regulatory protein OS=Salmonella typhi GN=fnr PE=3 SV=2 gi\|213999269 - gi\|213999269\|ref\|ZP_03410004.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella ent... gi\|213647145 - gi\|213647145\|ref\|ZP_03377198.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella ent... gi\|213427371 - gi\|213427371\|ref\|ZP_03360121.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella ent...	2.0E-50	[15..264]	[1..250]
gi\|238911954 - gi\|238911954\|ref\|ZP_04655791.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella ent... FNR_SALTY - Fumarate and nitrate reduction regulatory protein OS=Salmonella typhimurium (strain LT2 / SGSC1412 /... FNR_SALMS - Fumarate and nitrate reduction regulatory protein OS=Salmonella muenster GN=fnr PE=3 SV=1 gi\|167992845, gi... - gi\|205329067\|gb\|EDZ15831.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|205335334, gi... - gi\|205335334\|gb\|EDZ22098.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|168235790, gi... - gi\|197291170\|gb\|EDY30523.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... FNR_SALTY - Fumarate and nitrate reduction regulatory protein OS=Salmonella typhimurium GN=fnr PE=3 SV=1 gi\|205339642, gi... - gi\|205339642\|gb\|EDZ26406.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|161613867, gi... - gi\|161613867\|ref\|YP_001587832.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella en... gi\|161936242 - gi\|161936242\|ref\|YP_150490.2\| fumarate/nitrate reduction transcriptional regulator [Salmonella enter... gi\|162139582 - gi\|162139582\|ref\|YP_216643.2\| fumarate/nitrate reduction transcriptional regulator [Salmonella enter... gi\|167549852, gi... - gi\|205325132\|gb\|EDZ12971.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... lcl\|NC_016856.1_... - [gene=fnr] [protein=fumarate/nitrate reduction transcriptional regulator] [protein_id=YP_005237574.1... gi\|205272438, gi... - gi\|205352657\|ref\|YP_002226458.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella en... gi\|206708628, gi... - gi\|207856825\|ref\|YP_002243476.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella en... gi\|197262182, gi... - gi\|197262182\|ref\|ZP_03162256.1\| fumarate and nitrate reduction regulatory protein [Salmonella enteri... gi\|198242744, gi... - gi\|198242744\|ref\|YP_002215485.1\| fumarate and nitrate reduction regulatory protein [Salmonella enter... gi\|199603287, gi... - gi\|200390842\|ref\|ZP_03217453.1\| fumarate and nitrate reduction regulatory protein [Salmonella enteri... FNR_SALTY - Fumarate and nitrate reduction regulatory protein OS=Salmonella typhimurium GN=fnr PE=3 SV=1 gi\|204323291, gi... - gi\|204927949\|ref\|ZP_03219150.1\| fumarate and nitrate reduction regulatory protein [Salmonella enteri... gi\|194406229, gi... - gi\|194447925\|ref\|YP_002045703.1\| fumarate/nitrate reduction transcriptional regulator [Salmonella en... gi\|194459337, gi... - gi\|194472973\|ref\|ZP_03078957.1\| fumarate and nitrate reduction regulatory protein [Salmonella enteri... gi\|194734021, gi... - gi\|194734021\|ref\|YP_002114689.1\| fumarate and nitrate reduction regulatory protein [Salmonella enter... gi\|197213319, gi... - gi\|197249616\|ref\|YP_002146370.1\| fumarate and nitrate reduction regulatory protein [Salmonella enter... gi\|205350883, gi... - gi\|205350883\|gb\|EDZ37514.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|168462882, gi... - gi\|195634384\|gb\|EDX52736.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|168819464, gi... - gi\|205343734\|gb\|EDZ30498.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica s... gi\|194442382, gi... - gi\|194442382\|ref\|YP_002040911.1\| fumarate and nitrate reduction regulatory protein [Salmonella enter...	2.0E-50	[15..264]	[1..250]
gi\|194426079, gi... - gi\|75212775\|ref\|ZP_00712773.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula...	2.0E-50	[15..264]	[1..250]
FNR_ECOL6 - Fumarate and nitrate reduction regulatory protein OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 70... gi\|162138444 - gi\|162138444\|ref\|YP_540614.2\| fumarate/nitrate reduction transcriptional regulator [Escherichia coli... gi\|238900569, gi... - gi\|238900569\|ref\|YP_002926365.1\| DNA-binding transcriptional dual regulator, global regulator of ana... FNR_ECO57 - Fumarate and nitrate reduction regulatory protein OS=Escherichia coli O157:H7 GN=fnr PE=3 SV=1 gi\|218365090, gi... - gi\|218558321\|ref\|YP_002391234.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|30041106, gi\|... - gi\|30062858\|ref\|NP_837029.1\| fumarate/nitrate reduction transcriptional regulator [Shigella flexneri... gi\|218426887, gi... - gi\|218689323\|ref\|YP_002397535.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|15801834, gi\|... - gi\|15801834\|ref\|NP_287852.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia coli ... FNR_ECOL6 - Fumarate and nitrate reduction regulatory protein OS=Escherichia coli O6 GN=fnr PE=3 SV=1 gi\|218694908, gi... - gi\|218694908\|ref\|YP_002402575.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... EG10325 - oxygen-sensing anaerobic growth regulon transcriptional regulator FNR; autorepressor / Global transc... gi\|218700054, gi... - gi\|218700054\|ref\|YP_002407683.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|218431949, gi... - gi\|218704852\|ref\|YP_002412371.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|193066958, gi... - gi\|75240018\|ref\|ZP_00723979.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|189367089, gi... - gi\|189367089\|gb\|EDU85505.1\| fumarate and nitrate reduction regulatory protein [Escherichia coli O157... gi\|75242134, gi\|... - gi\|75242134\|ref\|ZP_00725928.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|169755228, gi... - gi\|170020300\|ref\|YP_001725254.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|157160845, gi... - gi\|75195482\|ref\|ZP_00705552.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|170081013, gi... - gi\|170081013\|ref\|YP_001730333.1\| DNA-binding transcriptional dual regulator, global regulator of ana... gi\|191165002, gi... - gi\|75231867\|ref\|ZP_00718208.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|170519651, gi... - gi\|170681933\|ref\|YP_001743842.1\| fumarate and nitrate reduction regulatory protein [Escherichia coli... gi\|81245620, gi\|... - gi\|82544209\|ref\|YP_408156.1\| fumarate/nitrate reduction transcriptional regulator [Shigella boydii S... gi\|170122469, gi... - gi\|170768921\|ref\|ZP_02903374.1\| fumarate and nitrate reduction regulatory protein [Escherichia alber... FNR_ECOLI - Fumarate and nitrate reduction regulatory protein - Escherichia coli gi\|56479971, gi\|... - gi\|56479971\|ref\|NP_707691.2\| fumarate/nitrate reduction transcriptional regulator [Shigella flexneri... gi\|215264703, gi... - gi\|215486631\|ref\|YP_002329062.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|75515045, gi\|... - gi\|75515045\|ref\|ZP_00737249.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|217317747, gi... - gi\|217329308\|ref\|ZP_03445388.1\| fumarate and nitrate reduction regulatory protein [Escherichia coli ... EG10325 - oxygen-sensing anaerobic growth regulon transcriptional regulator FNR; autorepressor / Global transc... gi\|73855772, gi\|... - gi\|74312295\|ref\|YP_310714.1\| fumarate/nitrate reduction transcriptional regulator [Shigella sonnei S... gi\|218360660, gi... - gi\|218553892\|ref\|YP_002386805.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia c... gi\|187429974, gi... - gi\|75179011\|ref\|ZP_00699029.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|1742191, gi\|8... - gi\|89108182\|ref\|AP_001962.1\| DNA-binding transcriptional dual regulator, global regulator of anaerob... gi\|157157974, gi... - gi\|75190421\|ref\|ZP_00703688.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|15831169, gi\|... - gi\|15831169\|ref\|NP_309942.1\| fumarate/nitrate reduction transcriptional regulator [Escherichia coli ... gi\|194433849, gi... - gi\|83569439\|ref\|ZP_00920892.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|110805770, gi... - gi\|110805770\|ref\|YP_689290.1\| fumarate/nitrate reduction transcriptional regulator [Shigella flexner... gi\|194424014, gi... - gi\|83587475\|ref\|ZP_00926103.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... FNR_SHIFL - Fumarate and nitrate reduction regulatory protein OS=Shigella flexneri GN=fnr PE=3 SV=1	3.0E-50	[15..264]	[1..250]
FNR_SHIDY - Fumarate and nitrate reduction regulatory protein OS=Shigella dysenteriae GN=fnr PE=3 SV=2 gi\|81240849, gi\|... - gi\|82776701\|ref\|YP_403050.1\| fumarate/nitrate reduction transcriptional regulator [Shigella dysenter...	5.0E-50	[15..264]	[1..250]

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Predicted Domain #1

Region A:
Residues: [1-264]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKLTNINYG LSRPMIPEKR IIRRIQSGGC AIHCQDCSIS QLCIPFTLNE HELDQLDNII  60
   61 ERKKPIQKGQ TLFKAGDELK SLYAIRSGTI KSYTITEQGD EQITGFHLAG DLVGFDAIGS 120
  121 GHHPSFAQAL ETSMVCKIPF ETLDDLSGKM PNLRQQMMRL MSGEIKGDQD MILLLSKKNA 180
  181 EERLAAFIYN LSRRFAQRGF SPREFRLTMT RGDIGNYLGL TVETISRLLG RFQKSGMLAV 240
  241 KGKYITIENS DALAALAGHT RNVA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	37.39794
Match:	1i5zA
Description:	Catabolite gene activator protein (CAP), C-terminal domain; Catabolite gene activator protein, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.00625548877971	bayes_pls_golite062009
binding	0.891226539481379	bayes_pls_golite062009
ion transmembrane transporter activity	0.87419884003031	bayes_pls_golite062009
cation transmembrane transporter activity	0.73981105657966	bayes_pls_golite062009
nucleic acid binding	0.59306579636505	bayes_pls_golite062009
sequence-specific DNA binding	0.53285802828572	bayes_pls_golite062009
DNA binding	0.47798148720399	bayes_pls_golite062009
transcription factor activity	0.159026311884013	bayes_pls_golite062009
protein binding	0.094542444184087	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: