RegulonDB RegulonDB 10.8: Operon Form
   

entCEBAH operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: entCEBAH
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: entCEBA-ybdB
Synonym(s): OP00227
Gene(s): entC, entE, entB, entA, entH   Genome Browser M3D Gene expression COLOMBOS
Note(s): The mdtEF-tolC, malEFG, gadBC, treBC, entCEBA-ybdB, hdeAB-yhiD, and alaE operons were differentially regulated after induction of the nonnative organic acid citramalate Webb J,2019
Expression of entC, along with that of other genes also regulated by Fur, is reduced under Zn excess Xu Z,2019.
Evidence: [PM] Polar mutation
Reference(s): [1] Nahlik MS., et al., 1989
[2] Ozenberger BA., et al., 1989
[3] Schultz JE., et al., 1991
Promoter
Name: entCp
+1: 624831
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 54
Sequence: ttgcagattgcgttacctcaagagttgacatagtgcgcgtttgcttttaggttagcgaccGaaaatataaatgataatcat
                         -35                    -10         +1                   
Evidence: [HIPP]
[IMP]
[TIM]
Reference(s): [4] Brickman TJ., et al., 1990
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CRP-cAMP activator entCp 624553 624574 -267.5 gcgtaatgacAAATTCGACAAAGCGCACAATCcgtcccctcg nd [AIBSCS], [CV(GEA/ROMA)], [GEA] [5]
proximal CRP-cAMP activator entCp 624791 624812 -29.5 cgttacctcaAGAGTTGACATAGTGCGCGTTTgcttttaggt nd [AIBSCS], [CV(GEA/ROMA)], [GEA] [5]
[Fur,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote Fur-Fe2+ repressor entCp 624722 624740 -100.0 cgaatccatcAATAATGCTTCTCATTTTCattgtaacca nd [AIBSCS], [CV(GEA/ROMA)], [GEA] [2], [4], [5]
proximal Fur-Fe2+ repressor entCp 624834 624852 13.0 agcgaccgaaAATATAAATGATAATCATTattaaagcct nd [AIBSCS], [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA] [4], [5], [6], [7]
proximal Fur-Fe2+ repressor entCp 624837 624855 16.0 gaccgaaaatATAAATGATAATCATTATTaaagccttta nd [APIORCISFBSCS], [BPP] [6]
proximal Fur-Fe2+ repressor entCp 624840 624858 19.0 cgaaaatataAATGATAATCATTATTAAAgcctttatca nd [APIORCISFBSCS], [BPP] [4], [6], [7]
proximal Fur-Fe2+ repressor entCp 624846 624864 25.0 tataaatgatAATCATTATTAAAGCCTTTatcattttgt nd [APIORCISFBSCS], [BPP] [4], [7]
remote Fur-Fe2+ repressor entCp 624852 624870 31.0 tgataatcatTATTAAAGCCTTTATCATTttgtggagga nd [APIORCISFBSCS], [BPP] [6]
remote Fur-Fe2+ repressor entCp 624879 624897 58.0 ttttgtggagGATGATATGGATACGTCACtggctgagga nd [BPP] [4]


Transcription unit       
Name: entH
Gene(s): entH   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IC] Inferred by curator
Promoter
Name: entHp
+1: 629292
Distance from start of the gene: 8
Sequence: gacctcgccagccatattaccctacaggatattgtggtcgatggcggctcaacgctggggGcataagcatgatctggaaac
Evidence: [HTIM]
Reference(s): [8] Mendoza-Vargas A., et al., 2009


Regulation by sRNA    
  Small RNA name (Regulator) Regulation type Mechanism Function Binding Sites Evidence Reference
LeftPos RightPos Sequence (RNA-strand)
  ryhB remains elusive   activator      
  ryhB remains elusive   activator      
  ryhB remains elusive   activator      
  ryhB remains elusive   activator      
  ryhB remains elusive   activator      
Notes: "The provided sequence is that of the RNA strand,i.e. 'U's are showed instead the 'T'"


Evidence    

 [HIPP] Human inference of promoter position

 [IMP] Inferred from mutant phenotype

 [TIM] Transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [CV(GEA/ROMA)] cross validation(GEA/ROMA)

 [GEA] Gene expression analysis

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [CV(CHIP-SV/GEA/ROMA)] cross validation(CHIP-SV/GEA/ROMA)

 [HTIM] High-throughput transcription initiation mapping


Reference(s)    

 [1] Nahlik MS., Brickman TJ., Ozenberger BA., McIntosh MA., 1989, Nucleotide sequence and transcriptional organization of the Escherichia coli enterobactin biosynthesis cistrons entB and entA., J Bacteriol 171(2):784-90

 [2] Ozenberger BA., Brickman TJ., McIntosh MA., 1989, Nucleotide sequence of Escherichia coli isochorismate synthetase gene entC and evolutionary relationship of isochorismate synthetase and other chorismate-utilizing enzymes., J Bacteriol 171(2):775-83

 [3] Schultz JE., Matin A., 1991, Molecular and functional characterization of a carbon starvation gene of Escherichia coli., J Mol Biol 218(1):129-40

 [4] Brickman TJ., Ozenberger BA., McIntosh MA., 1990, Regulation of divergent transcription from the iron-responsive fepB-entC promoter-operator regions in Escherichia coli., J Mol Biol 212(4):669-82

 [5] Zhang Z., Gosset G., Barabote R., Gonzalez CS., Cuevas WA., Saier MH., 2005, Functional interactions between the carbon and iron utilization regulators, Crp and Fur, in Escherichia coli., J Bacteriol 187(3):980-90

 [6] Chen Z., Lewis KA., Shultzaberger RK., Lyakhov IG., Zheng M., Doan B., Storz G., Schneider TD., 2007, Discovery of Fur binding site clusters in Escherichia coli by information theory models., Nucleic Acids Res 35(20):6762-77

 [7] Newman DL., Shapiro JA., 1999, Differential fiu-lacZ fusion regulation linked to Escherichia coli colony development., Mol Microbiol 33(1):18-32

 [8] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

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