YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|1742191, gi\|8...
Organism:	Escherichia coli str. K-12 substr. W3110
Length:	250 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|1742191, gi|8....

Description	E-value	Query Range	Subject Range
gi\|62127859, gi\|... - gi\|62180226\|ref\|YP_216643.1\| transcriptional regulation of aerobic, anaerobic respiration, osmotic b...	237.0	[0..1]	[250..32]
gi\|29142004, gi\|... - gi\|29142004\|ref\|NP_805346.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica ... gi\|16760227 - gi\|16760227\|ref\|NP_455844.1\| fumarate and nitrate reduction regulatory protein [Salmonella enterica ... gi\|16502522, gi\|... - gi\|25300726\|pir\|\|AE0662 fumarate and nitrate reduction regulatory protein STY1404 [imported] - Salmo...	235.0	[0..1]	[250..15]
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...	235.0	[0..1]	[250..20]
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 ...	234.0	[0..1]	[250..15]
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...	234.0	[0..1]	[250..15]
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...	234.0	[0..1]	[250..1]
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...	233.0	[0..1]	[250..1]
gi\|194426079, gi... - gi\|75212775\|ref\|ZP_00712773.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula...	233.0	[0..1]	[250..1]
gi\|6759981 - gi\|6759981\|gb\|AAF28139.1\|AF153317_36 Fnr [Shigella dysenteriae]	233.0	[0..1]	[250..15]
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...	232.0	[0..1]	[250..1]

Back

Predicted Domain #1

Region A:
Residues: [1-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIPEKRIIRR IQSGGCAIHC QDCSISQLCI PFTLNEHELD QLDNIIERKK PIQKGQTLFK  60
   61 AGDELKSLYA IRSGTIKSYT ITEQGDEQIT GFHLAGDLVG FDAIGSGHHP SFAQALETSM 120
  121 VCEIPFETLD DLSGKMPNLR QQMMRLMSGE IKGDQDMILL LSKKNAEERL AAFIYNLSRR 180
  181 FAQRGFSPRE FRLTMTRGDI GNYLGLTVET ISRLLGRFQK SGMLAVKGKY ITIENNDALA 240
  241 QLAGHTRNVA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	40.0
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	3.98990675336286	bayes_pls_golite062009
DNA binding	3.4273272886116	bayes_pls_golite062009
nucleic acid binding	3.38054693035398	bayes_pls_golite062009
transcription factor activity	2.80110428028438	bayes_pls_golite062009
binding	2.18911933843505	bayes_pls_golite062009
ion transmembrane transporter activity	0.87419884003031	bayes_pls_golite062009
cation transmembrane transporter activity	0.73981105657966	bayes_pls_golite062009
transcription activator activity	0.53294679084865	bayes_pls_golite062009
sequence-specific DNA binding	0.53285802828572	bayes_pls_golite062009
transcription repressor activity	0.513853050429619	bayes_pls_golite062009
protein binding	0.035220363090062	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: