RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: cra
Gene(s): cra   Genome Browser M3D Gene expression COLOMBOS
Note(s): Under nitrogen-rich growth conditions, the expression of the fruR gene was decreased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and increased in a mutant for the transcriptional regulator Fur. However, under nitrogen-limited growth conditions, the gene expression was increased in the cyoA and cydB mutants. It is unknown if the effects of Fur act directly on the gene expression Kumar R,2011
The expression of the gene cra is decreased under acidic growth conditions in either aerobiosis or microaerobiosis Marzan LW,2013 The decreased expression under aerobiosis appears to be caused by the transcription factor PhoB and also could be caused by the increased glucose concentration observed under acidic conditions Marzan LW,2013
Evidence: [COMP-AINF] Inferred computationally without human oversight
Promoter
Name: fruRp8
+1: 87947
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 81
Sequence: cgttgggctttttttgcgaaatcagtgggaacctggaataaaagcagttgccgcagttaaTtttctgcgcttagatgttaa
                                 -35               -10      +1                   
Evidence: [COMP-AINF]
Reference(s): [1] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[PhoB,-] 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
nd PhoB-phosphorylated repressor fruRp8 nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS] W [2]


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -12.4 87873 87902 gcaatttacaGCCCAACATGTCACGTTGGGCTTTTTTTGcgaaatcagt
  anti-terminator -17.1 87828 87876 ctttcgcgcgGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCcaacatgtca
  anti-anti-terminator -10.9 87800 87832 ggaggttgctCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGAtaaaataatg
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"


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] 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

 [2] Marzan LW., Hasan CM., Shimizu K., 2013, Effect of acidic condition on the metabolic regulation of Escherichia coli and its phoB mutant., Arch Microbiol 195(3):161-71

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