RegulonDB

TRANSCRIPTION FACTOR:

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 , CRP-cyclic-AMP

Coregulator(s):

AaeR, 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, RspR, 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:

NsrR	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

DNA-binding transcriptional regulator NsrR, YjeB

Gene name(s):

nsrR

Functional conformation(s):

NsrR , NsrR-[2Fe-2S]reduced , NsrR-[2Fe-2S]²⁺ oxidized , NsrR-nitric oxide

Coregulator(s):

ArcA, CRP, CpxR, CsgD, CytR, DksA, DksA-ppGpp, DsdC, FNR, FeaR, FhlA, Fis, FlhDC, Fur, GadE, H-NS, IHF, IscR, Lrp, MatA, MetR, ModE, Nac, NarL, NarP, NorR, NsrR, OxyR, PdhR, PhoB, QseB, SutR, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

FeaR	Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

DNA-binding transcriptional activator FeaR, MaoB, MaoX, YdbM

Gene name(s):

feaR

Functional conformation(s):

FeaR

Coregulator(s):

CRP, FeaR, NsrR

Summary:

TF Summary ...[more]

REGULATION EXERTED BY CRP,FeaR,NsrR

Info M3D | Colombos

KNOWN BINDING SITES (The central relative position is relative to the promoter +1)
CRP activator FeaR activator NsrR repressor
Transcription Factor		Regulated		Binding Sites				Evidence	References
Functional conformation	Function	Promoter	Gene(s)	LeftPos	RigthPos	Central Rel-Pos	Sequence
FeaR	activator	feaBp1	feaB	1447439	1447459	-43.0	gctgacaaagCGAATGTCACAGCGAAAAAAGtgacttttct	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[1]
CRP-cyclic-AMP	activator	feaBp1	feaB	1447410	1447431	-71.5	tattgtcacgATTTGCGGAGCTTGTCACAGCTgacaaagcga	[COMP-HINF-SIMILAR-TO-CONSENSUS] [EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[2]
FeaR	activator	feaBp1	feaB	1447418	1447438	-64.0	cgatttgcggAGCTTGTCACAGCTGACAAAGcgaatgtcac	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[3] [1]
NsrR	repressor	feaBp1	feaB	1447303	1447314	-184.0	tcgctctgtgAAATGTATTTTTattgttgcat	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[4] [5]

Evidence:	[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
Reference(s):	[1] Zeng J., et al., 2013 [2] Yamashita M., et al., 1996 [3] Hanlon SP., et al., 1997 [4] Partridge JD., et al., 2009 [5] Rankin LD., et al., 2008

Reference(s)
[1] Zeng J., Spiro S., 2013, Finely tuned regulation of the aromatic amine degradation pathway in Escherichia coli., J Bacteriol 195(22):5141-50
[2] Yamashita M., Azakami H., Yokoro N., Roh JH., Suzuki H., Kumagai H., Murooka Y., 1996, maoB, a gene that encodes a positive regulator of the monoamine oxidase gene (maoA) in Escherichia coli., J Bacteriol 178(10):2941-7
[3] Hanlon SP., Hill TK., Flavell MA., Stringfellow JM., Cooper RA., 1997, 2-phenylethylamine catabolism by Escherichia coli K-12: gene organization and expression., Microbiology 143 ( Pt 2):513-8
[4] Partridge JD., Bodenmiller DM., Humphrys MS., Spiro S., 2009, NsrR targets in the Escherichia coli genome: new insights into DNA sequence requirements for binding and a role for NsrR in the regulation of motility., Mol Microbiol 73(4):680-94
[5] Rankin LD., Bodenmiller DM., Partridge JD., Nishino SF., Spain JC., Spiro S., 2008, Escherichia coli NsrR regulates a pathway for the oxidation of 3-nitrotyramine to 4-hydroxy-3-nitrophenylacetate., J Bacteriol 190(18):6170-7