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SoxS regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
SoxS Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional dual regulator SoxS, regulation of superoxide response regulon
Gene name(s): soxS
Functional conformation(s): SoxS
Coregulator(s): AcrR, ArcA, BasR, CRP, CpxR, Cra, DnaA, EnvR, FNR, Fis, Fur, H-NS, HU, IHF, Lrp, MarA, MarR, Mlc, MprA, NarL, OmpR, OxyR, PhoP, Rob, SoxR, SoxS, Zur
Summary: TF Summary ...[more]

REGULATION EXERTED BY SoxS Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
SoxS activator    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
SoxS activator ribAp1 ribA 1339249 1339268 -69.0 caggaaaaatTGACAGATTTGTGCCATTCCGtgaacgatcg   [1]
[2]
[3]
[4]
SoxS activator fldBp fldB 3039763 3039782 -49.0 ttatggtcacTCATTTGATCCATTATGCCTTattgtgccgt   [5]
SoxS activator fldBp fldB 3039774 3039794 -38.0 catttgatccATTATGCCTTATTGTGCCGTGactaaagcga   [5]
[6]
SoxS activator fldAp fur , uof , fldA 711573 711592 -61.5 tttccactttCATGTAGCACAGTGTGCAGTCctgctcgttt   [3]
[7]
[4]
[8]
SoxS activator pgip pgi 4233673 4233693 -39.5 cattacgctaACGGCACTAAAACCATCACATttttctgtga   [6]
[9]
SoxS activator ydbKp ompN , ydbK 1440876 1440895 -54.5 cgctgatgtgGGGGACACAAAAGCGAAAATGcagaagaaag   [10]
SoxS activator ydbKp ompN , ydbK 1440872 1440891 -50.5 gatgtgggggACACAAAAGCGAAAATGCAGAagaaagccat   [10]
SoxS activator nepIp nepI 3841756 3841775 6.0 tgttaaagtgGTCGGCTTTTCCCCTGAAACAtgccacgggt   [4]
SoxS activator pgip2 pgi 4233673 4233693 -39.5 cattacgctaACGGCACTAAAACCATCACATttttctgtga   [6]
[9]

Reference(s): [1] Koh YS., et al., 1996
[2] Koh YS., et al., 1999
[3] Martin RG., et al., 1999
[4] Seo SW., et al., 2015
[5] Gaudu P., et al., 2000
[6] Martin RG., et al., 2002
[7] Pomposiello PJ., et al., 2001
[8] Zheng M., et al., 1999
[9] Rungrassamee W., et al., 2008
[10] Nakayama T., et al., 2013



Reference(s)    

 [1] Koh YS., Choih J., Lee JH., Roe JH., 1996, Regulation of the ribA gene encoding GTP cyclohydrolase II by the soxRS locus in Escherichia coli., Mol Gen Genet 251(5):591-8

 [2] Koh YS., Chung WH., Lee JH., Roe JH., 1999, The reversed SoxS-binding site upstream of the ribA promoter in Escherichia coli., Mol Gen Genet 261(2):374-80

 [3] 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

 [4] Seo SW., Kim D., Szubin R., Palsson BO., 2015, Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655., Cell Rep 12(8):1289-99

 [5] Gaudu P., Weiss B., 2000, Flavodoxin mutants of Escherichia coli K-12., J Bacteriol 182(7):1788-93

 [6] Martin RG., Rosner JL., 2002, Genomics of the marA/soxS/rob regulon of Escherichia coli: identification of directly activated promoters by application of molecular genetics and informatics to microarray data., Mol Microbiol 44(6):1611-24

 [7] Pomposiello PJ., Bennik MH., Demple B., 2001, Genome-wide transcriptional profiling of the Escherichia coli responses to superoxide stress and sodium salicylate., J Bacteriol 183(13):3890-902

 [8] Zheng M., Doan B., Schneider TD., Storz G., 1999, OxyR and SoxRS regulation of fur., J Bacteriol 181(15):4639-43

 [9] Rungrassamee W., Liu X., Pomposiello PJ., 2008, Activation of glucose transport under oxidative stress in Escherichia coli., Arch Microbiol 190(1):41-9

 [10] Nakayama T., Yonekura S., Yonei S., Zhang-Akiyama QM., 2013, Escherichia coli pyruvate:flavodoxin oxidoreductase, YdbK - regulation of expression and biological roles in protection against oxidative stress., Genes Genet Syst 88(3):175-88


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