RegulonDB RegulonDB 11.2: Operon Form
   

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




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


Transcription unit          
Name: cpxPQ
Gene(s): cpxP, cpxQ   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the gene cpxP is increased when colicin (at 30 ng/ml) is added to the medium Kamen?ek S, ?gur-Bertok D,2013.
Under NlpE outer membrane lipoprotein overexpression, the transcription of the cpxP gene is increased by CpxR Raivio TL,2013
cpxP is positively regulated in the presence of epigallocatechin gallate (EGCG) through CpxR Nie T, Zhang C, Huang A, Li P,2018
The cpxP gene is upregulated by short-term (30 min) exposure of E. coli to some biocides Merchel Piovesan Pereira B, Wang X, Tagkopoulos I,2020.
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
Reference(s): [1] Danese PN., et al., 1998
Promoter
Name: cpxPp
+1: 4105785
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 35
Sequence: ctttacgttgttttacaccccctgacgcatgtttgcagcctgaatcgtaaactctctatcGttgaatcgcgacagaaagat
                      -35                       -10         +1                   
Evidence: [COMP-AINF]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[RS-EPT-CBR]
Reference(s): [2] De Wulf P., et al., 1999
[3] Huerta AM., et al., 2003
[4] Mendoza-Vargas A., et al., 2009
[5] Salgado H, et al., 2012
[6] Yamamoto K., et al., 2006
Terminator(s)
Type: rho-independent
Sequence: tccctgtcttCCCCCACATGCTGTGGGGGttttttttat
Reference(s): [1] Danese PN., et al., 1998
TF binding sites (TFBSs)
[CpxR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CpxR-phosphorylated activator cpxPp 4105732 4105733 -52.0 gactttacgtTgttttacacc nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2], [6], [7]
proximal CpxR-phosphorylated activator cpxPp 4105752 4105753 -32.0 cccctgacgcAtgtttgcagc nd [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-EXO] S [2], [7]
proximal CpxR-phosphorylated activator cpxPp 4105771 4105790 -5.0 agcctgaatcGTAAACTCTCTATCGTTGAAtcgcgacaga nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-CHIP-EXO], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] C [2], [6], [7]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] High-throughput transcription initiation mapping

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-CHIP-EXO] high throughput ChIP-exo evidence


Reference(s)    

 [1] Danese PN., Silhavy TJ., 1998, CpxP, a stress-combative member of the Cpx regulon., J Bacteriol 180(4):831-9

 [2] De Wulf P., Kwon O., Lin EC., 1999, The CpxRA signal transduction system of Escherichia coli: growth-related autoactivation and control of unanticipated target operons., J Bacteriol 181(21):6772-8

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [5] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [6] Yamamoto K., Ishihama A., 2006, Characterization of copper-inducible promoters regulated by CpxA/CpxR in Escherichia coli., Biosci Biotechnol Biochem 70(7):1688-95

 [7] Raivio TL., Leblanc SK., Price NL., 2013, The Escherichia coli Cpx envelope stress response regulates genes of diverse function that impact antibiotic resistance and membrane integrity., J Bacteriol 195(12):2755-67

 [8] Grabowicz M., Koren D., Silhavy TJ., 2016, The CpxQ sRNA Negatively Regulates Skp To Prevent Mistargeting of β-Barrel Outer Membrane Proteins into the Cytoplasmic Membrane., MBio 7(2):e00312-16

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