RegulonDB

TRANSCRIPTION FACTOR:

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, GadE-RcsB, GadW, GadX, GlcC, GlpR, H-NS, HprR, IHF, IscR, LeuO, Lrp, MalT, MarA, MarR, MazE, MazE-MazF, Mlc, MntR, ModE, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PepA, PurR, RcsB, RcsB-BglJ, 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-cyclic-AMP , CRP

Coregulator(s):

AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BolA, BtsR, CRP, CRP-Sxy, 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, FrlR, FucR, Fur, GadE, GadE-RcsB, 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, PlaR, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YjjQ, ZraR, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

H-NS	Tractordb tool

Connectivity class

Global Regulator

Sensing Class

TFs for DNA-bending

Synonym(s):

BglY, Cur, DNA-binding protein HLP-II (HU, BH2, HD, NS), DNA-binding transcriptional dual regulator H-NS, Drc, DrdX, Drs, FimG, Hns, HnsA, Irk, MsyA, OsmZ, PilG, TopS, TopX, VirR

Gene name(s):

hns

Functional conformation(s):

H-NS

Coregulator(s):

AcrR, AdiY, ArcA, ArgP, ArgR, BasR, BolA, BtsR, CRP, CadC, CaiF, CdaR, CpxR, Cra, CreB, CsgD, CspA, CysB, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, FNR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GlaR, GutM, H-NS, HU, HdfR, HypT, IHF, LacI, LeuO, LrhA, Lrp, MalT, MarA, MatA, McbR, MlrA, MntR, MqsA, NagC, NanR, NarL, NarP, NhaR, NrdR, NsrR, OmpR, OxyR, PhoB, PhoP, QseB, RcdA, RcsAB, RcsB, RcsB-BglJ, Rob, RstA, RutR, SdiA, SlyA, SoxS, SrlR, StpA, SutR, TorR, UvrY, YdeO, YjjQ, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

LeuO	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Sensing Class

Using internal synthesized signals

Synonym(s):

DNA-binding transcriptional dual regulator LeuO

Gene name(s):

leuO

Functional conformation(s):

LeuO

Coregulator(s):

CRP, CadC, DksA-ppGpp, FNR, Fis, H-NS, LeuO, LrhA, MlrA, OmpR, RcsB-BglJ, SlyA, StpA, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

StpA	Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

DNA-binding transcriptional repressor StpA with RNA chaperone activity, H-NS-like DNA-binding transcriptional repressor with RNA chaperone activity, HnsB

Gene name(s):

stpA

Functional conformation(s):

StpA

Coregulator(s):

CRP, CreB, Fis, H-NS, LeuO, Lrp, MalT, RcsB-BglJ, SlyA, StpA

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

RcsB-BglJ

Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

RcsB-BglJ DNA-binding transcriptional activator, RcsBgl

Gene name(s):

bglJ, rcsB

Functional conformation(s):

RcsB-BglJ

Coregulator(s):

CRP, Fis, H-NS, LeuO, LexA, RcsB-BglJ, StpA

Summary:

TF Summary ...[more]

REGULATION EXERTED BY CRP,Fis,H-NS,LeuO,RcsB-BglJ,StpA

Info M3D | Colombos

KNOWN BINDING SITES (The central relative position is relative to the promoter +1)
CRP activator Fis repressor H-NS repressor LeuO activator RcsB-BglJ activator StpA repressor
Transcription Factor		Regulated		Binding Sites				Evidence	References
Functional conformation	Function	Promoter	Gene(s)	LeftPos	RigthPos	Central Rel-Pos	Sequence
CRP-cyclic-AMP	activator	bglGp1	bglB , bglF , bglG	3906748	3906769	-61.5	caaagttaatAACTGCGAGCATGGTCATATTTttatcaatag	[GEA]	[1] [2]
H-NS	repressor	bglGp1	bglB , bglF , bglG	3906011	3906025	680.0	agttaatgcgCGAAATGCTGCAATTaataaaattt	[GEA]	[3] [4] [5] [6]
Fis	repressor	bglGp1	bglB , bglF , bglG	3906742	3906756	-52.0	tgcgagcatgGTCATATTTTTATCAatagcgcatt		[7]
Fis	repressor	bglGp1	bglB , bglF , bglG	3906717	3906731	-27.0	atagcgcattGCTATTTTCTCTGCAcgcaattaaa		[7]
LeuO	activator	bglGp1	bglB , bglF , bglG	3906805	3906825	-118.0	aataacttaaTTATTGGGATTTGTTATATATaactttataa	[GEA] [IC]	[8] [5] [6]
RcsB-BglJ	activator	bglGp1	bglB , bglF , bglG	3906783	3906802	-95.5	ttatatataaCTTTATAAATTCCTAAAATTacacaaagtt	[GEA]	[9] [8] [10] [6]
LeuO	activator	bglGp1	bglB , bglF , bglG	3906836	3906856	-149.0	atagcgacaaATAATTCACCAGACAAATCCCaataacttaa	[GEA] [IC]	[8] [5] [6]
StpA	repressor	bglGp1	bglB , bglF , bglG

Evidence:	[GEA] Gene expression analysis [IC] Inferred by curator
Reference(s):	[1] Gulati A., et al., 2000 [2] Zheng D., et al., 2004 [3] Dole S., et al., 2004 [4] Schnetz K., et al., 1996 [5] Ueguchi C., et al., 1998 [6] Venkatesh GR., et al., 2010 [7] Caramel A., et al., 2000 [8] Madhusudan S., et al., 2005 [9] Giel M., et al., 1996 [10] Salscheider SL., et al., 2014

Reference(s)
[1] Gulati A., Mahadevan S., 2000, Mechanism of catabolite repression in the bgl operon of Escherichia coli: involvement of the anti-terminator BglG, CRP-cAMP and EIIAGlc in mediating glucose effect downstream of transcription initiation., Genes Cells 5(4):239-50
[2] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93
[3] Dole S., Nagarajavel V., Schnetz K., 2004, The histone-like nucleoid structuring protein H-NS represses the Escherichia coli bgl operon downstream of the promoter., Mol Microbiol 52(2):589-600
[4] Schnetz K., Wang JC., 1996, Silencing of the Escherichia coli bgl promoter: effects of template supercoiling and cell extracts on promoter activity in vitro., Nucleic Acids Res 24(12):2422-8
[5] Ueguchi C., Ohta T., Seto C., Suzuki T., Mizuno T., 1998, The leuO gene product has a latent ability to relieve bgl silencing in Escherichia coli., J Bacteriol 180(1):190-3
[6] Venkatesh GR., Kembou Koungni FC., Paukner A., Stratmann T., Blissenbach B., Schnetz K., 2010, BglJ-RcsB heterodimers relieve repression of the Escherichia coli bgl operon by H-NS., J Bacteriol 192(24):6456-64
[7] Caramel A., Schnetz K., 2000, Antagonistic control of the Escherichia coli bgl promoter by FIS and CAP in vitro., Mol Microbiol 36(1):85-92
[8] Madhusudan S., Paukner A., Klingen Y., Schnetz K., 2005, Independent regulation of H-NS-mediated silencing of the bgl operon at two levels: upstream by BglJ and LeuO and downstream by DnaKJ., Microbiology 151(Pt 10):3349-59
[9] Giel M., Desnoyer M., Lopilato J., 1996, A mutation in a new gene, bglJ, activates the bgl operon in Escherichia coli K-12., Genetics 143(2):627-35
[10] Salscheider SL., Jahn A., Schnetz K., 2014, Transcriptional regulation by BglJ-RcsB, a pleiotropic heteromeric activator in Escherichia coli., Nucleic Acids Res 42(5):2999-3008
[11] Gueune H., Durand MJ., Thouand G., DuBow MS., 2008, The ygaVP genes of Escherichia coli form a tributyltin-inducible operon., Appl Environ Microbiol 74(6):1954-8
[12] Sun D., Mao X., Fei M., Chen Z., Zhu T., Qiu J., 2020, Histone-like Nucleoid-Structuring Protein (H-NS) Paralogue StpA Activates the Type I-E CRISPR-Cas System against Natural Transformation in Escherichia coli., Appl Environ Microbiol 86(14)