RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: flgMN
Gene(s): flgN, flgM   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: flgMp
+1: 1130165
Sigma Factor: Sigma28 Sigmulon
Distance from start of the gene: 37
Sequence: gaatattcttataaacctgtaagctgttaaagattacccgtcccttgccgataaataagcAacacatgataaaagcgccct
                            -35                -10          +1                   
Note(s): The sequence of this promoter has been defined, by computational analyses, from consensus sequence of the σ28 (σF) promoters: TAAAGTTT in the -35 box and GCCGATAA in the -10 box Park K,2001. Ko M,2000. Ide N,1999. 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]
[IDA]
Reference(s): [1] Chilcott GS., et al., 2000
[2] Huerta AM., et al., 2003
[3] Ide N., et al., 1999
[4] Ko M., et al., 2000
[5] Park K., et al., 2001
TF binding sites (TFBSs)
[CsgD,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CsgD repressor flgMp 1130142 1130156 17.5 caacacatgaTAAAAGCGCCCTCAAtgaggaataa nd [APIORCISFBSCS], [BPP] [6]
proximal CsgD repressor flgMp 1130158 1130172 1.5 cttgccgataAATAAGCAACACATGataaaagcgc nd [APIORCISFBSCS], [BPP] [6]


Transcription unit          
Name: flgAMN
Gene(s): flgN, flgM, flgA   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 flgAMN 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): [7] Macnab RM. 1992
Promoter
Name: flgAp
+1: 1130885
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 22
Sequence: cgcaaaatgggtcgctatttatgccgttgatggtcattgcggacaggtacaattcacgttGtagaaatggctgggggcgaa
                           -35                  -10         +1                   
Evidence: [HIPP]
[ICWHO]
Reference(s): [2] Huerta AM., et al., 2003
[8] Stafford GP., et al., 2005
TF binding sites (TFBSs)
[FlhDC,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FlhDC activator flgAp 1130917 1130933 -40.0 caaaatgggtCGCTATTTATGCCGTTGatggtcattg nd [GEA], [APIORCISFBSCS] [8]
proximal FlhDC activator flgAp 1130945 1130961 -68.0 tacgcgcgcgTTATCGGCGGAATAAACgcaaaatggg nd [GEA], [APIORCISFBSCS] [8]


Evidence    

 [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

 [ICWHO] Inferred computationally without human oversight

 [IDA] Inferred from direct assay

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis


Reference(s)    

 [1] Chilcott GS., Hughes KT., 2000, Coupling of flagellar gene expression to flagellar assembly in Salmonella enterica serovar typhimurium and Escherichia coli., Microbiol Mol Biol Rev 64(4):694-708

 [2] 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

 [3] Ide N., Ikebe T., Kutsukake K., 1999, Reevaluation of the promoter structure of the class 3 flagellar operons of Escherichia coli and Salmonella., Genes Genet Syst 74(3):113-6

 [4] Ko M., Park C., 2000, Two novel flagellar components and H-NS are involved in the motor function of Escherichia coli., J Mol Biol 303(3):371-82

 [5] Park K., Choi S., Ko M., Park C., 2001, Novel sigmaF-dependent genes of Escherichia coli found using a specified promoter consensus., FEMS Microbiol Lett 202(2):243-50

 [6] Dudin O., Geiselmann J., Ogasawara H., Ishihama A., Lacour S., 2014, Repression of flagellar genes in exponential phase by CsgD and CpxR, two crucial modulators of Escherichia coli biofilm formation., J Bacteriol 196(3):707-15

 [7] Macnab RM., 1992, Genetics and biogenesis of bacterial flagella., Annu Rev Genet 26:131-58

 [8] Stafford GP., Ogi T., Hughes C., 2005, Binding and transcriptional activation of non-flagellar genes by the Escherichia coli flagellar master regulator FlhD2C2., Microbiology 151(Pt 6):1779-88

 [9] Romilly C., Hoekzema M., Holmqvist E., Wagner EGH., 2020, Small RNAs OmrA and OmrB promote class III flagellar gene expression by inhibiting the synthesis of anti-Sigma factor FlgM., RNA Biol 17(6):872-880

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