RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: fadH
Gene(s): fadH   Genome Browser M3D Gene expression COLOMBOS
Note(s): Repression of fadH transcription by the ArcAB system is additive to FadR repression under anaerobic conditions Feng Y,2010
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: fadHp
+1: 3231624
Distance from start of the gene: 41
Sequence: ccatcacaaaccccgcactccccttttcccttttctccggcgacggctaaattagaactcAtccgaccacataacaattat
Note(s): The CRP-cAMP complex activates the fadH promoter; however, the absence of CRP-cAMP reduces the repression of fadH expression by FadR and ArcA-ArcB. This suggests that HipB may regulate fadH expression in cooperation with other DNA-binding proteins Lin CY,2013
Evidence: [TIM]
Reference(s): [1] Feng Y., et al., 2010
TF binding sites (TFBSs)
[ArcA,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal ArcA-phosphorylated repressor fadHp 3231635 3231649 19.0 tccgaccacaTAACAATTATTTTACatactggaca nd [EME], [GEA], [AIBSPD], [APIORCISFBSCS], [CCE] [1], [3], [4]
[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-cyclic-AMP activator fadHp 3231552 3231573 -61.5 ccgggcgtatTCTTTTTGAATCCCATCACAAAccccgcactc nd [GEA], [APIORCISFBSCS] [1]
[FadR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FadR repressor fadHp 3231619 3231635 4.0 gctaaattagAACTCATCCGACCACATaacaattatt nd [GEA], [APIORCISFBSCS], [BPP] [1], [3]
[HipB,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote HipB repressor fadHp 3231474 3231510 -132.5 gtggacgcctTATCCGCCCTACATGTGCAATTCCGTAACCTGGATAAaacgcgacaa nd [GEA], [APIORCISFBSCS], [BPP] [2]


Evidence    

 [TIM] Transcription initiation mapping

 [EME] Expression microarray evidence

 [GEA] Gene expression analysis

 [AIBSPD] Automated inference based on sequence pattern discovery

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

 [CCE] ChIP-chip evidence

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Feng Y., Cronan JE., 2010, Overlapping repressor binding sites result in additive regulation of Escherichia coli FadH by FadR and ArcA., J Bacteriol 192(17):4289-99

 [2] Lin CY., Awano N., Masuda H., Park JH., Inouye M., 2013, Transcriptional repressor HipB regulates the multiple promoters in Escherichia coli., J Mol Microbiol Biotechnol 23(6):440-7

 [3] Cho BK., Knight EM., Palsson BO., 2006, Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA., Microbiology 152(Pt 8):2207-19

 [4] Federowicz S., Kim D., Ebrahim A., Lerman J., Nagarajan H., Cho BK., Zengler K., Palsson B., 2014, Determining the control circuitry of redox metabolism at the genome-scale., PLoS Genet 10(4):e1004264

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