RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: argCBH
Synonym(s): OP00005
Gene(s): argC, argB, argH   Genome Browser M3D Gene expression COLOMBOS
Note(s): argCBH is also controlled by RpoS during the entry into the stationary phase. However, 16504055 could not determined if the rpoS effect was direct or indirect.
Based on DNA microarray analysis, the mechanism of bacterial inactivation by carvacrol and citral was studied 28644990. Treatment by both compounds caused membrane damage and activated metabolism through the production of nucleotides required for DNA and RNA synthesis and metabolic processes 28644990. A total of 76 and 156 genes demonstrated significant transcriptional differences by carvacrol and citral, respectively. Genes upregulated by carvacrol treatment included the multidrug efflux pump genes acrA and mdtM, genes related to the phage shock response, pspA, pspB, pspC, pspD, pspF, and pspG, and genes whose products are important for biosynthesis of arginine (argC, argG, artJ) and purine nucleotides (purC, purM). Genes upregulated by citral treatment included purH, pyrB, and pyrI. On the other hand, mutations in several differentially expressed genes confirmed the roles of ygaV, yjbO, pspC, sdhA, yejG, and ygaV in mechanisms of inactivation by carvacrol and citral 28644990.
Reference(s): [1] Natter W., et al., 1977
[2] Sens D., et al., 1977
Promoter
Name: argCp
+1: 4154885
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 116
Sequence: aatggcggtaatttgtttttcattgttgacacacctctggtcatgatagtatcaatattcAtgcagtatttatgaataaaa
                          -35                  -10          +1                   
Evidence: [TIM]
Reference(s): [3] Piette J., et al., 1982
TF binding sites (TFBSs)
[ArgR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal ArgR-L-arginine repressor argCp 4154873 4154890 -3.5 ggtcatgataGTATCAATATTCATGCAGtatttatgaa nd [AIBSCS], [BCE], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [4], [5], [6], [7]
proximal ArgR-L-arginine repressor argCp 4154895 4154912 19.5 atgcagtattTATGAATAAAAATACACTaacgttgagc nd [AIBSCS], [BCE], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [4], [5], [6], [7]


Transcription unit       
Name: argH
Gene(s): argH   Genome Browser M3D Gene expression COLOMBOS
Evidence: [NBDA] No biological data available


Evidence    

 [TIM] Transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BCE] Binding of cellular extracts

 [BPP] Binding of purified proteins

 [CV(GEA)] cross validation(GEA)

 [CV(GEA/SM)] cross validation(GEA/SM)

 [CV(SM)] cross validation(SM)

 [GEA] Gene expression analysis

 [SM] Site mutation


Reference(s)    

 [1] Natter W., Sens D., James E., 1977, Metabolism of arginine-specific messenger ribonucleic acid in Escherichia coli K-12., J Bacteriol 131(1):214-23

 [2] Sens D., Natter W., James E., 1977, In vitro transcription of the Escherichia coli K-12 argA, argE, and argCBH operons., J Bacteriol 130(2):642-55

 [3] Piette J., Cunin R., Boyen A., Charlier D., Crabeel M., Van Vliet F., Glansdorff N., Squires C., Squires CL., 1982, The regulatory region of the divergent argECBH operon in Escherichia coli K-12., Nucleic Acids Res 10(24):8031-48

 [4] Caldara M., Charlier D., Cunin R., 2006, The arginine regulon of Escherichia coli: whole-system transcriptome analysis discovers new genes and provides an integrated view of arginine regulation., Microbiology 152(Pt 11):3343-54

 [5] Charlier D., Roovers M., Van Vliet F., Boyen A., Cunin R., Nakamura Y., Glansdorff N., Pierard A., 1992, Arginine regulon of Escherichia coli K-12. A study of repressor-operator interactions and of in vitro binding affinities versus in vivo repression., J Mol Biol 226(2):367-86

 [6] Cunin R., Eckhardt T., Piette J., Boyen A., Pierard A., Glansdorff N., 1983, Molecular basis for modulated regulation of gene expression in the arginine regulon of Escherichia coli K-12., Nucleic Acids Res 11(15):5007-19

 [7] Makarova KS., Mironov AA., Gelfand MS., 2001, Conservation of the binding site for the arginine repressor in all bacterial lineages., Genome Biol 2(4):RESEARCH0013

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