RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit          
Name: cpxRA
Gene(s): cpxA, cpxR   Genome Browser M3D Gene expression COLOMBOS
Note(s): The cpxRA operon was inferred based on the facts that cpxR and cpxA are adjacent genes, encoded in the same direction, and their products are part of the two-component system CpxR/CpxA. CpxA is the sensor protein and CpxR is the response regulator De Wulf P,1999.
An integrated transcriptomic study of the extracytoplasmic stress response, which detects and responds to alterations of the bacterial envelope, was performed by Bury-Moré et al. (2009). They investigated the interconnections and dynamics between Bae, Cpx, Psp, Rcs, and σE pathways and showed that these pathways can be activated simultaneously in response to exogenous or endogenous stimulation, while natural environmental stimuli provoke bacterial modifications that lead to multiple pathway responses 19763168
Each of these responses might be specialized to ensure a specific aspect of envelope biogenesis and maintenance; on the other hand, CpxR could have a role as a modulator of the response by integrating other endogenous signals. Bury-Moré et al. concluded that all five pathways are needed to mount a full response to extracytoplasmic stress 19763168
Evidence: [IC] Inferred by curator
Promoter
Name: cpxRp
+1: 4105686
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 16
Sequence: gggggtgtaaaacaacgtaaagtcatggattagcgacgtctgatgacgtaatttctgcctCggaggtatttaaacaatgaa
                         -35                     -10        +1                   
Note(s): De Wulf et al. in 1999 showed that transcription of cpxR is highly dependent on alternative factor σ38 (RpoS) during the stationary phase De Wulf P,1999.
We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box.
Evidence: [HIPP]
[ICWHO]
Reference(s): [1] De Wulf P., et al., 1999
[2] Huerta AM., et al., 2003
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CpxR-Phosphorylated activator cpxRp 4105726 4105740 -47.0 cgtcagggggTGTAAAACAACGTAAAgtcatggatt nd [APIORCISFBSCS], [BPP], [GEA] [1]
proximal CpxR-Phosphorylated activator cpxRp 4105746 4105760 -67.0 cgattcaggcTGCAAACATGCGTCAGggggtgtaaa nd [APIORCISFBSCS], [GEA] [1]
sRNA Interaction TU
sRNA TU Regulated Function Binding Sites Regulatory Mechanism Evidence (Confirmed, Strong, Weak) Reference(s)
PosLeft PosRight Target sequence (mRNA)
small regulatory RNA MicF cpxRA repressor 4105642 4105653 UCAUCAUCAACU nd [IMP] [3]


Transcription unit          
Name: cpxRA
Gene(s): cpxA, cpxR   Genome Browser M3D Gene expression COLOMBOS
Note(s): The cpxRA operon was inferred based on the facts that cpxR and cpxA are adjacent genes, encoded in the same direction, and their products are part of the two-component system CpxR/CpxA. CpxA is the sensor protein and CpxR is the response regulator De Wulf P,1999.
An integrated transcriptomic study of the extracytoplasmic stress response, which detects and responds to alterations of the bacterial envelope, was performed by Bury-Moré et al. (2009). They investigated the interconnections and dynamics between Bae, Cpx, Psp, Rcs, and σE pathways and showed that these pathways can be activated simultaneously in response to exogenous or endogenous stimulation, while natural environmental stimuli provoke bacterial modifications that lead to multiple pathway responses 19763168
Each of these responses might be specialized to ensure a specific aspect of envelope biogenesis and maintenance; on the other hand, CpxR could have a role as a modulator of the response by integrating other endogenous signals. Bury-Moré et al. concluded that all five pathways are needed to mount a full response to extracytoplasmic stress 19763168
Evidence: [IC] Inferred by curator
Promoter
Name: cpxRp2
+1: 4105686
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 16
Sequence: gggggtgtaaaacaacgtaaagtcatggattagcgacgtctgatgacgtaatttctgcctCggaggtatttaaacaatgaa
Note(s): De Wulf et al. in 1999 showed that transcription of cpxR is highly dependent on alternative factor σ38 (RpoS) during the stationary phase De Wulf P,1999.
We assigned a putative transcription start site to this promoter based on the observation that the majority of the promoters, whose transcription start sites were determined experimentally, present a distance of 6 nucleotides between the transcription start site and the -10 box.
Evidence: [HIPP]
Reference(s): [1] De Wulf P., et al., 1999
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CpxR-Phosphorylated activator cpxRp2 4105726 4105740 -47.0 cgtcagggggTGTAAAACAACGTAAAgtcatggatt nd [APIORCISFBSCS], [BPP], [GEA] [1]
proximal CpxR-Phosphorylated activator cpxRp2 4105746 4105760 -67.0 cgattcaggcTGCAAACATGCGTCAGggggtgtaaa nd [APIORCISFBSCS], [GEA] [1]
sRNA Interaction TU
sRNA TU Regulated Function Binding Sites Regulatory Mechanism Evidence (Confirmed, Strong, Weak) Reference(s)
PosLeft PosRight Target sequence (mRNA)
small regulatory RNA MicF cpxRA repressor 4105642 4105653 UCAUCAUCAACU nd [IMP] [3]





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