RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: fecABCDE
Synonym(s): OP00206, fecIRABCDE
Gene(s): fecE, fecD, fecC, fecB, fecA   Genome Browser M3D Gene expression COLOMBOS
Note(s): A possible role in the rpsA-ihfB, adhP, fecIR, and fecABCDE operons was described for functional abortive RNAs (faRNAs), based on computational prediction and described by Nair et al. 2017 Marcus JI, Hassoun S, Nair NU,2017
Expression of fecA, along with that of other genes also regulated by Fur, is reduced under Zn excess Xu Z,2019.
Downregulation of the fecABCDE operon was observed in a fecR R79/80K mutant Passmore IJ, Dow JM, Coll F, Cuccui J, Palmer T, Wren BW,2020 The arginine-to-lysine mutation prevents periplasmic translocation of the C-terminal domain of FecR, avoiding its binding to citrate-loaded FecA, and decouples the FecIR signal cascade Passmore IJ, Dow JM, Coll F, Cuccui J, Palmer T, Wren BW,2020
fecABCDE expression could be affected by OmpR, because the fecA gene was affected in an EnvZ mutant, part of the sensor pair of EnvZ/OmpR Gerken H,2020.
Evidence: [CV(LTED/PM)] cross validation(LTED/PM)
[IEP] Inferred from expression pattern
[ITCR] Inferred through co-regulation
[LTED] Length of transcript experimentally determined
[PM] Polar mutation
Reference(s): [1] Braun V. 1997
Promoter
Name: fecAp
+1: 4516727
Distance from start of the gene: 50
Sequence: tggataaacatttcaccactgtaaggaaaataattcttatttcgattgtcctttttacccTtctcgttcgactcatagctg
Evidence: [APIORCISFBSCS]
[CV(RPF/TIM)]
[HIPP]
[RPF]
[TIM]
Reference(s): [2] Enz S., et al., 1995
[3] Enz S., et al., 2003
[4] Silva AA., et al., 1998
TF binding sites (TFBSs)
[AscG,?] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd AscG unknown fecAp nd nd nd nd nd [BPP] nd
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd CRP-cyclic-AMP activator fecAp nd nd nd nd nd [GEA], [BPP] [9]
[Fur,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal Fur-Fe2+ repressor fecAp 4516741 4516759 -23.0 ctgtaaggaaAATAATTCTTATTTCGATTgtccttttta nd [GEA], [APIORCISFBSCS], [BPP] [5], [6], [7]
proximal Fur-Fe2+ repressor fecAp 4516744 4516762 -26.0 ccactgtaagGAAAATAATTCTTATTTCGattgtccttt nd [GEA], [AIBSCS], [APIORCISFBSCS], [BPP] [6], [7], [8], [9]
proximal Fur-Fe2+ repressor fecAp 4516747 4516765 -29.0 tcaccactgtAAGGAAAATAATTCTTATTtcgattgtcc nd [GEA], [AIBSCS], [BPP] [5], [6], [7]
[HypT,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd HypT-Met-oxidized repressor fecAp nd nd nd nd nd [GEA], [BPP] [11], [12]
[PdhR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PdhR activator fecAp 4516740 4516756 -21.0 taaggaaaatAATTCTTATTTCGATTGtcctttttac nd [GEA], [AIBSCS] [10]


Evidence    

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

 [CV(RPF/TIM)] cross validation(RPF/TIM)

 [HIPP] Human inference of promoter position

 [RPF] RNA polymerase footprinting

 [TIM] Transcription initiation mapping

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences


Reference(s)    

 [1] Braun V., 1997, Surface signaling: novel transcription initiation mechanism starting from the cell surface., Arch Microbiol 167(6):325-31

 [2] Enz S., Braun V., Crosa JH., 1995, Transcription of the region encoding the ferric dicitrate-transport system in Escherichia coli: similarity between promoters for fecA and for extracytoplasmic function sigma factors., Gene 163(1):13-8

 [3] Enz S., Mahren S., Menzel C., Braun V., 2003, Analysis of the ferric citrate transport gene promoter of Escherichia coli., J Bacteriol 185(7):2387-91

 [4] Silva AA., Barbieri MA., Gomes UA., Bettiol H., 1998, Trends in low birth weight: a comparison of two birth cohorts separated by a 15-year interval in Ribeirao Preto, Brazil., Bull World Health Organ 76(1):73-84

 [5] 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

 [6] Gerken H., Vuong P., Soparkar K., Misra R., 2020, Roles of the EnvZ/OmpR Two-Component System and Porins in Iron Acquisition in Escherichia coli., mBio 11(3)

 [7] Zhang F., Li B., Dong H., Chen M., Yao S., Li J., Zhang H., Liu X., Wang H., Song N., Zhang K., Du N., Xu S., Gu L., 2020, YdiV regulates Escherichia coli ferric uptake by manipulating the DNA-binding ability of Fur in a SlyD-dependent manner., Nucleic Acids Res 48(17):9571-9588

 [8] Angerer A., Braun V., 1998, Iron regulates transcription of the Escherichia coli ferric citrate transport genes directly and through the transcription initiation proteins., Arch Microbiol 169(6):483-90

 [9] 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

 [10] Faith JJ., Hayete B., Thaden JT., Mogno I., Wierzbowski J., Cottarel G., Kasif S., Collins JJ., Gardner TS., 2007, Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles., PLoS Biol 5(1):e8

 [11] Drazic A., Miura H., Peschek J., Le Y., Bach NC., Kriehuber T., Winter J., 2013, Methionine oxidation activates a transcription factor in response to oxidative stress., Proc Natl Acad Sci U S A 110(23):9493-8

 [12] Gebendorfer KM., Drazic A., Le Y., Gundlach J., Bepperling A., Kastenmuller A., Ganzinger KA., Braun N., Franzmann TM., Winter J., 2012, Identification of a Hypochlorite-specific Transcription Factor from Escherichia coli., J Biol Chem 287(9):6892-903

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