RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: feaB
Gene(s): feaB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Zaslaver A., et al., 2006
Promoter
Name: feaBp2
+1: 1447370
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 149
Sequence: tttttattgttgcatttgtgttgcaataaacgaagctaatgagcctgactataggaaataAgtcttgtcaggcatagagac
                     -35                          -10       +1                   
Evidence: [TIM]
Reference(s): [2] Zeng J., et al., 2013
Terminator(s)
Type: rho-independent
Sequence: gctcataagtAAAAAACGGCACCTGGTGCCGTTTTTTtgtctgaaac
Reference(s): [3] Ferrandez A., et al., 1997


Transcription unit          
Name: feaB
Gene(s): feaB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of tynA is activated in carbon- and nitrogen-limited cells in the presence of a FeaR coactivator Zeng J,2013.
During carbon limitation in the presence of the FeaR coactivators (glycerol medium plus tyramine/PEA), both tynA and feaB are upregulated Zeng J,2013.
tynA, feaB, and fliA promoters are strongly repressed when the nsrR start codon from the wild-type GUG is changed to AUG Chhabra S,2015
Evidence: [AISDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Zaslaver A., et al., 2006
Promoter
Name: feaBp1
+1: 1447492
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 27
Sequence: gacaaagcgaatgtcacagcgaaaaaagtgacttttcttgtcgctgcgtacactgaaatcAcactgggtaaataataagga
                            -35                  -10        +1                   
Note(s): Zaslaver et al. demonstrated in 2006, by means of a library of fluorescent transcription fusions, that this promoter can be transcribed in vitro Zaslaver A,2006.
Evidence: [TIM]
Reference(s): [3] Ferrandez A., et al., 1997
[1] Zaslaver A., et al., 2006
[2] Zeng J., et al., 2013
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
proximal CRP-cAMP activator feaBp1 1447410 1447431 -71.5 tattgtcacgATTTGCGGAGCTTGTCACAGCTgacaaagcga nd [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] [2], [6]
[FeaR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FeaR activator feaBp1 1447418 1447438 -64.0 cgatttgcggAGCTTGTCACAGCTGACAAAGcgaatgtcac nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM] [2], [7]
proximal FeaR activator feaBp1 1447439 1447459 -43.0 gctgacaaagCGAATGTCACAGCGAAAAAAGtgacttttct nd [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM] [2]
[NsrR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote NsrR repressor feaBp1 1447303 1447314 -184.0 tcgctctgtgAAATGTATTTTTattgttgcat nd [APIORCISFBSCS], [CV(GEA/ROMA)], [GEA] [4], [5]


Evidence    

 [TIM] Transcription initiation mapping

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

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

 [GEA] Gene expression analysis

 [BPP] Binding of purified proteins

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

 [CV(CHIP-SV/SM)] cross validation(CHIP-SV/SM)

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

 [SM] Site mutation


Reference(s)    

 [1] Zaslaver A., Bren A., Ronen M., Itzkovitz S., Kikoin I., Shavit S., Liebermeister W., Surette MG., Alon U., 2006, A comprehensive library of fluorescent transcriptional reporters for Escherichia coli., Nat Methods 3(8):623-8

 [2] Zeng J., Spiro S., 2013, Finely tuned regulation of the aromatic amine degradation pathway in Escherichia coli., J Bacteriol 195(22):5141-50

 [3] Ferrandez A., Prieto MA., Garcia JL., Diaz E., 1997, Molecular characterization of PadA, a phenylacetaldehyde dehydrogenase from Escherichia coli., FEBS Lett 406(1-2):23-7

 [4] Partridge JD., Bodenmiller DM., Humphrys MS., Spiro S., 2009, NsrR targets in the Escherichia coli genome: new insights into DNA sequence requirements for binding and a role for NsrR in the regulation of motility., Mol Microbiol 73(4):680-94

 [5] Rankin LD., Bodenmiller DM., Partridge JD., Nishino SF., Spain JC., Spiro S., 2008, Escherichia coli NsrR regulates a pathway for the oxidation of 3-nitrotyramine to 4-hydroxy-3-nitrophenylacetate., J Bacteriol 190(18):6170-7

 [6] Yamashita M., Azakami H., Yokoro N., Roh JH., Suzuki H., Kumagai H., Murooka Y., 1996, maoB, a gene that encodes a positive regulator of the monoamine oxidase gene (maoA) in Escherichia coli., J Bacteriol 178(10):2941-7

 [7] Hanlon SP., Hill TK., Flavell MA., Stringfellow JM., Cooper RA., 1997, 2-phenylethylamine catabolism by Escherichia coli K-12: gene organization and expression., Microbiology 143 ( Pt 2):513-8

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