RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: purHD
Synonym(s): OP00078, purH
Gene(s): purD, purH   Genome Browser M3D Gene expression COLOMBOS
Note(s): The site for the RbsR transcriptional regulator in the purHD operon was identified based on genomic Selex analysis Shimada T,2013
The deletion of the Fis DNA binding sites located upstream of the purHp promoter enhances the inhibition of purHp via transcription-coupled DNA supercoiling (TCDS) in the early log phase. Fis appears to block supercoiling diffusion close to purHp 31639222.

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] Aiba A., et al., 1989
Promoter
Name: purHp
+1: 4207627
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 95
Sequence: tcaccattgaaagagaaaaattcgcgagcgttgcgcaaacgttttcgttacaatgcgggcGaaaaataaggatgccccgtt
                           -35                   -10        +1                   
Evidence: [TIM]
Reference(s): [1] Aiba A., et al., 1989
[2] He B., et al., 1990
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
remote PhoP-Phosphorylated1 activator purHp 4208098 4208114 -479.0 taaacttcgtAATGAATTACGTGTTCActcttgagac nd [AIBSCS], [CV(GEA)], [GEA] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PurR-hypoxanthine repressor purHp 4207640 4207655 -20.5 cgcgagcgttGCGCAAACGTTTTCGTtacaatgcgg nd [AIBSCS], [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2], [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal RbsR repressor purHp 4207638 4207657 -20.5 ttcgcgagcgTTGCGCAAACGTTTTCGTTAcaatgcgggc nd [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [5]
Note(s): 1This regulatory interaction was identified by means of PhoPQ-related microarray experiments, and it was investigated to determine the presence of its regulatory motif in the promoter region Monsieurs P,2005.1This regulatory interaction was identified by means of PhoPQ-related microarray experiments, and it was investigated to determine the presence of its regulatory motif in the promoter region Monsieurs P,2005.


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -14.9 4207585 4207630 ttacaatgcgGGCGAAAAATAAGGATGCCCCGTTAGGGGCGTTAGCTGAGTTTTTcgcgaaaaat
  anti-terminator -7.3 4207607 4207636 ttttcgttacAATGCGGGCGAAAAATAAGGATGCCCCGTtaggggcgtt
  anti-anti-terminator -15.2 4207625 4207667 aagagaaaaaTTCGCGAGCGTTGCGCAAACGTTTTCGTTACAATGCGGGCGAaaaataagga
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"





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