RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit       
Name: pqiABC
Gene(s): pqiA, pqiB, pqiC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [PM] Polar mutation
Reference(s): [1] Koh YS., et al., 1996
[2] Nakayama T., et al., 2017
Promoter
Name: pqiAp
+1: 1011659
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 342
Sequence: gaagccgccgcggcaaaagcagaaactgtaaaacgcagcagtagcaaactaagctataaaTtgcagcgcgaactggagcag
                          -35                -10            +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[1] Koh YS., et al., 1996


Transcription unit       
Name: pqiABC
Gene(s): pqiA, pqiB, pqiC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [PM] Polar mutation
Reference(s): [1] Koh YS., et al., 1996
[2] Nakayama T., et al., 2017
Promoter
Name: pqiAp2
+1: 1011659
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 342
Sequence: gaagccgccgcggcaaaagcagaaactgtaaaacgcagcagtagcaaactaagctataaaTtgcagcgcgaactggagcag
                          -35                     -10       +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[1] Koh YS., et al., 1996


Transcription unit          
Name: pqiABC
Gene(s): pqiA, pqiB, pqiC   Genome Browser M3D Gene expression COLOMBOS
Note(s): The pqiABC operon is related to the Mla transport pathway and is important for membrane integrity Nakayama T,2017.
Evidence: [PM] Polar mutation
Reference(s): [1] Koh YS., et al., 1996
[2] Nakayama T., et al., 2017
Promoter
Name: pqiAp1
+1: 1011666
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 335
Sequence: ccgcggcaaaagcagaaactgtaaaacgcagcagtagcaaactaagctataaattgcagcGcgaactggagcagctaccgc
                     -35                        -10         +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[4] Imashimizu M., et al., 2020
[5] Koh YS., et al., 1995
[1] Koh YS., et al., 1996
TF binding sites (TFBSs)
[MarA,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal MarA activator pqiAp1 1011614 1011633 -42.5 cgccgcggcaAAAGCAGAAACTGTAAAACGcagcagtagc nd [GEA], [APIORCISFBSCS], [BPP] [6], [7]
[SoxS,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal SoxS activator pqiAp1 1011616 1011635 -40.0 ccgcggcaaaAGCAGAAACTGTAAAACGCAgcagtagcaa nd [GEA], [APIORCISFBSCS], [BPP], [SM] [1], [6]


Transcription unit          
Name: pqiABC
Gene(s): pqiA, pqiB, pqiC   Genome Browser M3D Gene expression COLOMBOS
Note(s): The pqiABC operon is related to the Mla transport pathway and is important for membrane integrity Nakayama T,2017.
Evidence: [PM] Polar mutation
Reference(s): [1] Koh YS., et al., 1996
[2] Nakayama T., et al., 2017
Promoter
Name: pqiAp3
+1: 1011666
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 335
Sequence: ccgcggcaaaagcagaaactgtaaaacgcagcagtagcaaactaagctataaattgcagcGcgaactggagcagctaccgc
                   -35                -10                   +1                   
Evidence: [HIPP]
[ICWHO]
[IDA]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[5] Koh YS., et al., 1995
[1] Koh YS., et al., 1996
TF binding sites (TFBSs)
[MarA,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal MarA activator pqiAp3 1011614 1011633 -42.5 cgccgcggcaAAAGCAGAAACTGTAAAACGcagcagtagc nd [GEA], [APIORCISFBSCS], [BPP] [6], [7]
[SoxS,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal SoxS activator pqiAp3 1011616 1011635 -40.0 ccgcggcaaaAGCAGAAACTGTAAAACGCAgcagtagcaa nd [GEA], [APIORCISFBSCS], [BPP], [SM] [1], [6]


Transcription unit       
Name: ymbA
Gene(s): pqiC   Genome Browser M3D Gene expression COLOMBOS
Evidence: [IHBCE] Inferred by a human based on computational evidence


Evidence    

 [HIPP] Human inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [IDA] Inferred from direct assay

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis

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

 [BPP] Binding of purified proteins

 [SM] Site mutation


Reference(s)    

 [1] Koh YS., Roe JH., 1996, Dual regulation of the paraquat-inducible gene pqi-5 by SoxS and RpoS in Escherichia coli., Mol Microbiol 22(1):53-61

 [2] Nakayama T., Zhang-Akiyama QM., 2017, pqiABC and yebST, Putative mce Operons of Escherichia coli, Encode Transport Pathways and Contribute to Membrane Integrity., J Bacteriol 199(1)

 [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] Imashimizu M., Tokunaga Y., Afek A., Takahashi H., Shimamoto N., Lukatsky DB., 2020, Control of Transcription Initiation by Biased Thermal Fluctuations on Repetitive Genomic Sequences., Biomolecules 10(9)

 [5] Koh YS., Roe JH., 1995, Isolation of a novel paraquat-inducible (pqi) gene regulated by the soxRS locus in Escherichia coli., J Bacteriol 177(10):2673-8

 [6] Martin RG., Gillette WK., Rhee S., Rosner JL., 1999, Structural requirements for marbox function in transcriptional activation of mar/sox/rob regulon promoters in Escherichia coli: sequence, orientation and spatial relationship to the core promoter., Mol Microbiol 34(3):431-41

 [7] Martin RG., Rosner JL., 2011, Promoter discrimination at class I MarA regulon promoters mediated by glutamic acid 89 of the MarA transcriptional activator of Escherichia coli., J Bacteriol 193(2):506-15

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