|Gene(s):||ydeP Genome Browser M3D Gene expression COLOMBOS|
|Note(s):||The transcription of ydeP appears to be increased under acidic growth conditions during the exponential phase in a RcsB-dependent manner, but not during stationary phase |CITS:|.
|CITS:| proposed a model of the regulatory network of the acid resistance genes, including evgA, ydeP, ydeO, yhiE, gadABC, and hdeAB, using a combination of microarray analysis and gene replacement techniques. With these assays, seven operons were identified as induced when EvgA is overexpressed and YdeO is absent; on the other hand, 12 operons were identified as induced when YdeO is overexpressed. To confirm these regulatory interactions, the EvgA consensus site was searched with the ALIGNACE program, and the 18-bp site found was tested by gel shift analysis with the upstream regions of the corresponding operons. As the result, just six operons are regulated by EvgA, among which the ydeP gene is included.
Based on results of gene expression analysis, EMSA, and a LacZ reporter assay, it was determined that the ydeP promotor is activated by five transcription factors: NarL, NarP, RcsB, UhpA, and UvrY |CITS: |.
|Reference(s):|| Masuda N., et al., 2003|
|Sigma Factor:||Sigma70 Sigmulon|
|Distance from start of the gene:||178|
-10 -35 +1
|Note(s):||The ydeP promoter is considered one of the group of multifactor promoters Aseev LV,2015|
|Reference(s):|| Itou J., et al., 2009|
|Type||Transcription factor||Function||Promoter||Binding Sites||Growth Conditions||Evidence (Confirmed, Strong, Weak)||Reference(s)|
|proximal||EvgA-Phosphorylated||activator||ydePp||1586730||1586747||-74.5||gaaggctattAGCCTACACCTGTAAGAAaatccgcgca||nd||[AIBSCS], [BPP], [GEA]||, |
|Transcription factor||Function||Promoter||Binding Sites||Evidence (Confirmed, Strong, Weak)||Reference(s)|
|EvgA-Phosphorylated||activator||ydePp||1586730||1586747||-74.5||gaaggctattAGCCTACACCTGTAAGAAaatccgcgca||[AIBSCS], [BPP], [GEA]||, |
|RcsB-Pasp56||activator||ydePp||nd||nd||nd||nd||[BPP], [GEA]||, |
1This binding site was determined from a computational prediction based on different statistical methods Oberto J.,2010 The function of the binding site was assigned according to the distance from the transcription start, with NagC as the transcriptional repressor.2This binding site was determined from a computational prediction based on different statistical methods Oberto J.,2010 The function of the binding site was assigned according to the distance from the transcription start, with NagC as the transcriptional repressor.
 Burton NA., Johnson MD., Antczak P., Robinson A., Lund PA., 2010, Novel aspects of the acid response network of E. coli K-12 are revealed by a study of transcriptional dynamics., J Mol Biol 401(5):726-42
 Johnson MD., Burton NA., Gutierrez B., Painter K., Lund PA., 2011, RcsB Is Required for Inducible Acid Resistance in Escherichia coli and Acts at gadE-Dependent and -Independent Promoters., J Bacteriol 193(14):3653-6