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CRP,DnaA,Fis,PurR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
Fis Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class TFs for DNA-bending
Synonym(s): DNA-binding transcriptional dual regulator Fis, Nbp, site-specific DNA inversion stimulation factor
Gene name(s): fis
Functional conformation(s): Fis
Coregulator(s): AcrR, AdiY, AppY, ArcA, ArgP, BasR, CRP, CpxR, Cra, CreB, CspA, CusR, CytR, DeoR, DksA, DksA-ppGpp, DnaA, FNR, FadR, Fis, FlhDC, FliZ, Fur, GadE, GadW, GadX, GlcC, GlpR, H-NS, HprR, IHF, IscR, LeuO, Lrp, MalT, MarA, MarR, MazE, Mlc, MntR, ModE, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PepA, PurR, RcsB, Rob, RstA, RutR, SlyA, SoxS, StpA, TorR, XylR, YdeO, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP-cAMP , CRP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BtsR, CRP, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsB, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
DnaA Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): chromosomal replication initiator protein DnaA, chromosomal replication initiator protein/DNA-binding transcriptional dual regulator DnaA
Gene name(s): dnaA
Functional conformation(s): DnaA , DnaA-ATP
Coregulator(s): ArcA, ArgP, CRP, CytR, DnaA, FNR, Fis, H-NS, LexA, MarA, NrdR, PurR, Rob, SoxS, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
PurR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional repressor PurR
Gene name(s): purR
Functional conformation(s): PurR-Guanine , PurR-hypoxanthine , PurR
Coregulator(s): CRP, DnaA, FNR, Fis, Fur, GadE, GcvA, IHF, Lrp, MarA, MetR, Nac, PepA, PhoP, PurR, RbsR, RutR
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,DnaA,Fis,PurR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP activator DnaA repressor Fis repressor PurR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator guaBp guaA , guaB 2634214 2634235 -117.5 tgagaaggtaACATGTGAGCGAGATCAAATTCtaaatcagca [BPP]
[GEA]
[SM]
[1]
DnaA-ATP repressor guaBp guaA , guaB 2633856 2633864 248.0 gtatcggcttTATCCACAAaaacatgtcc [BPP]
[GEA]
[HIBSCS]
[2]
[3]
PurR-hypoxanthine repressor guaBp guaA , guaB 2634124 2634139 -24.5 aaaggggtagATGCAATCGGTTACGCtctgtataat [AIBSCS]
[BCE]
[GEA]
[4]
[5]
Fis repressor guaBp guaA , guaB 2634072 2634086 29.0 taaccactctGGTCGAGATATTGCCcatgctacgt [AIBSCS]
[BPP]
[6]
Fis repressor guaBp guaA , guaB 2634093 2634107 8.0 taatgccgcgGCAATATTTATTAACcactctggtc [AIBSCS]
[BPP]
[SM]
[6]
Fis repressor guaBp guaA , guaB 2634111 2634125 -11.0 aatcggttacGCTCTGTATAATGCCgcggcaatat [AIBSCS]
[BPP]
[SM]
[6]

Evidence: [BPP] Binding of purified proteins
[GEA] Gene expression analysis
[SM] Site mutation
[HIBSCS] Human inference based on similarity to consensus sequences
[AIBSCS] Automated inference based on similarity to consensus sequences
[BCE] Binding of cellular extracts
Reference(s): [1] Husnain SI., et al., 2009
[2] Tesfa-Selase F., et al., 1992
[3] Tesfa-Selase F., et al., 1996
[4] Cho BK., et al., 2011
[5] Meng LM., et al., 1990
[6] Husnain SI., et al., 2008



Reference(s)    

 [1] Husnain SI., Busby SJ., Thomas MS., 2009, Downregulation of the Escherichia coli guaB promoter by upstream-bound cyclic AMP receptor protein., J Bacteriol 191(19):6094-104

 [2] Tesfa-Selase F., Drabble WT., 1992, Regulation of the gua operon of Escherichia coli by the DnaA protein., Mol Gen Genet 231(2):256-64

 [3] Tesfa-Selase F., Drabble WT., 1996, Specific binding of DnaA protein to a DnaA box in the guaB gene of Escherichia coli K12., Eur J Biochem 241(2):411-6

 [4] Cho BK., Federowicz SA., Embree M., Park YS., Kim D., Palsson BO., 2011, The PurR regulon in Escherichia coli K-12 MG1655., Nucleic Acids Res 39(15):6456-64

 [5] Meng LM., Kilstrup M., Nygaard P., 1990, Autoregulation of PurR repressor synthesis and involvement of purR in the regulation of purB, purC, purL, purMN and guaBA expression in Escherichia coli., Eur J Biochem 187(2):373-9

 [6] Husnain SI., Thomas MS., 2008, Downregulation of the Escherichia coli guaB promoter by FIS., Microbiology 154(Pt 6):1729-38


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