RegulonDB RegulonDB 11.0: Operon Form
   

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




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


Transcription unit       
Name: pfkB
Gene(s): pfkB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The end of the pfkB transcription unit has not been proved. The pfkB gene studies only focused on obtaining its complete sequence and transcription start region, which are reported at Daldal F.,1983.
The transcription of the pfkB gene is repressed during the first 24 h after the induction of nitrogen starvation Switzer A, Burchell L, McQuail J, Wigneshweraraj S,2020.
The expression of the gene pfkB is enhanced under oxygen limitation Kawaguchi H, Miyagawa H, Nakamura-Tsuruta S, Takaya N, Ogino C, Kondo A,2019.
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Daldal F. 1984
[2] Daldal F. 1983
Promoter
Name: pfkBp2
+1: 1806323
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 47
Sequence: atatttatctgcaaaattttaaataaagctccaataaatcatattgttaatttcttcactTtccgctgattcggtgccaga
                              -35                 -10       +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[4] Lacour S., et al., 2004


Transcription unit       
Name: pfkB
Gene(s): pfkB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The end of the pfkB transcription unit has not been proved. The pfkB gene studies only focused on obtaining its complete sequence and transcription start region, which are reported at Daldal F.,1983.
The transcription of the pfkB gene is repressed during the first 24 h after the induction of nitrogen starvation Switzer A, Burchell L, McQuail J, Wigneshweraraj S,2020.
The expression of the gene pfkB is enhanced under oxygen limitation Kawaguchi H, Miyagawa H, Nakamura-Tsuruta S, Takaya N, Ogino C, Kondo A,2019.
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Daldal F. 1984
[2] Daldal F. 1983
Promoter
Name: pfkBp1
+1: 1806351
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 19
Sequence: ctccaataaatcatattgttaatttcttcactttccgctgattcggtgccagactgaaatCagcctataggaggaaatgat
                           -35               -10            +1                   
Evidence: [APIORCISFBSCS]
[HIPP]
[ICWHO]
[TIM]
Reference(s): [1] Daldal F. 1984
[2] Daldal F. 1983
[3] Huerta AM., et al., 2003
[4] Lacour S., et al., 2004


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Translational
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -13.2 1806323 1806363 ttcttcacttTCCGCTGATTCGGTGCCAGACTGAAATCAGCCTATAGGAGgaaatgatgg
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    

 [ICWHO] Inferred computationally without human oversight

 [TIM] Transcription initiation mapping

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [HIPP] Human inference of promoter position


Reference(s)    

 [1] Daldal F., 1984, Nucleotide sequence of gene pfkB encoding the minor phosphofructokinase of Escherichia coli K-12., Gene 28(3):337-42

 [2] Daldal F., 1983, Molecular cloning of the gene for phosphofructokinase-2 of Escherichia coli and the nature of a mutation, pfkB1, causing a high level of the enzyme., J Mol Biol 168(2):285-305

 [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] Lacour S., Landini P., 2004, SigmaS-dependent gene expression at the onset of stationary phase in Escherichia coli: function of sigmaS-dependent genes and identification of their promoter sequences., J Bacteriol 186(21):7186-95

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