RegulonDB RegulonDB 11.0: Operon Form
   

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




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


Transcription unit          
Name: fliFGHIJK
Gene(s): fliF, fliG, fliH, fliI, fliJ, fliK   Genome Browser M3D Gene expression COLOMBOS
Note(s): In a study where it was shown that the L-tryptophan eradicated persister cells, it was observed that the exogenous amino acid downregulated the expression of fliGHIJ as well as other flagellar genes Li Y, Liu B, Guo J, Cong H, He S, Zhou H, Zhu F, Wang Q, Zhang L,2019.
Promoter
Name: fliFp1
+1: 2013146
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 83
Sequence: acaaaaaaacgggtttattggcggatagaaaaaaacgaaagcacaaataatgggagcgtcAatttttcgagtttgctgacc
                         -35                  -10           +1                   
Note(s): The activity of the fliFp promoter is dependent on FlhDC, but it has been observed that flhDC expression is not a guarantee that fliFp is activated. A better correlation for expression of flhDC and fliFp activity is observed when YdiV, the anti-FlhDC protein, is deleted Kim JM, Garcia-Alcala M, Balleza E, Cluzel P,2020.
We assigned a putative transcriptional start site to this promoter based on the observation that the majority of the promoters, whose transcriptional start sites were determined experimentally, present a distance of 6 nucleotides between the transcriptional start site and the -10 box.
Evidence: [HIPP]
[ICWHO]
Reference(s): [1] Huerta AM., et al., 2003
[2] Stafford GP., et al., 2005
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
proximal CsgD repressor fliFp1 2013054 2013068 -85.5 aagcctaccaGTAAGTCAATAAGACaaaggcgcta nd [GEA], [APIORCISFBSCS], [BPP] [3]
proximal CsgD repressor fliFp1 2013069 2013083 -70.5 tcaataagacAAAGGCGCTAAATAGcaacaaaaaa nd [GEA], [APIORCISFBSCS], [BPP] [3]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FlhDC activator fliFp1 2013068 2013086 -69.5 gtcaataagaCAAAGGCGCTAAATAGCAAcaaaaaaacg nd [GEA], [APIORCISFBSCS] [2], [4]
proximal FlhDC activator fliFp1 2013097 2013113 -41.0 caaaaaaacgGGTTTATTGGCGGATAGaaaaaaacga nd [GEA], [APIORCISFBSCS] [2], [4]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd PdeL repressor fliFp1 nd nd nd nd nd [GEA], [BPP] [4]


Transcription unit       
Name: fliFGHIJK
Gene(s): fliF, fliG, fliH, fliI, fliJ, fliK   Genome Browser M3D Gene expression COLOMBOS
Note(s): In a study where it was shown that the L-tryptophan eradicated persister cells, it was observed that the exogenous amino acid downregulated the expression of fliGHIJ as well as other flagellar genes Li Y, Liu B, Guo J, Cong H, He S, Zhou H, Zhu F, Wang Q, Zhang L,2019.
Reference(s): [5] Al Mamun AA., et al., 1997
Promoter
Name: fliFp2
+1: 2013205
Sigma Factor: Sigma28 Sigmulon
Distance from start of the gene: 24
Sequence: caatttttcgagtttgctgacccgggagtgagtcttgttccactttgccaataacgccgtCcataatcagccacgaggtgc
                          -35                  -10          +1                   
Note(s): The sequence of this promoter has been defined, by computational analyses, from the consensus sequence of the σ28F) promoters: TAAAGTTT in the -35 box and GCCGATAA in the -10 box Muller V,1992. Therefore, we assigned a putative transcription start site for this promoter based on the observation that the majority of the σ28 promoters, determined experimentally, present an important -10 motif (5'-CGA-3') at the positions -12 to -10 and a distance of 6 nucleotides between the transcription start site and the -10 box Yu HH, Di Russo EG, Rounds MA, Tan M,2006. Yu HH,2006. Park K,2001.
Evidence: [APIORCISFBSCS]
[HIPP]
[ICWHO]
Reference(s): [1] Huerta AM., et al., 2003
[6] Muller V., et al., 1992





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