RegulonDB

TRANSCRIPTION FACTOR:

Name:

PhoB	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Sensing Class

External-Two-component systems

Synonym(s):

DNA-binding transcriptional dual regulator PhoB, PhoB response regulator, PhoT

Gene name(s):

phoB

Functional conformation(s):

PhoB , PhoB-phosphorylated

Coregulator(s):

AlpA, ArgP, AscG, CRP, CpxR, CusR, EnvY, FNR, Fur, GadE, GadE-RcsB, GadW, GadX, H-NS, HprR, IHF, Nac, NsrR, OmpR, PhoB, PrpR, QseB, RcdA, RstA, RutR

Summary:

TF Summary ...[more]

REGULATION EXERTED BY PhoB

Info M3D | Colombos

KNOWN BINDING SITES (The central relative position is relative to the promoter +1)
PhoB activator
Transcription Factor		Regulated		Binding Sites				Evidence	References
Functional conformation	Function	Promoter	Gene(s)	LeftPos	RigthPos	Central Rel-Pos	Sequence
PhoB-phosphorylated	activator	phoAp	phoA , psiF	401667	401685	-31.0	ttttcaacagCTGTCATAAAGTTGTCACGgccgagactt	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[1]
PhoB-phosphorylated	activator	ugpBp1	ugpQ , ugpC , ugpE , ugpA , ugpB	3592399	3592417	-30.0	tgtaacaaaaAAGTTATTTTTCTGTAATTcgagcatgtc	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[2] [1]
PhoB-phosphorylated	activator	phoEp	phoE	260261	260281	-113.0	ttttgttgcgCGGGATCAGCAAGCCTAGCGGcagttgttta	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[1]
PhoB-phosphorylated	activator	phoEp	phoE	260237	260255	-88.0	agcggcagttGTTTACGCTTTTATTACAGatttaataaa	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[1]
PhoB-phosphorylated	activator	phoEp	phoE	260181	260199	-32.0	tattattaatCTGTAATATATCTTTAACAatctcaggtt	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[1]
PhoB-phosphorylated	activator	phoHp1	phoH	1084825	1084843	-31.0	tttttcatcaCTGTCATCACTCTGTCATCtttccagtag	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[3] [1]
PhoB-phosphorylated	activator	amnp1	amn	2054989	2055007	-33.0	cgatcttcgcCTTACACTTTTGTTTCACAtttctgtgac	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[4]
PhoB-phosphorylated	activator	ugpBp1	ugpQ , ugpC , ugpE , ugpA , ugpB	3592421	3592439	-52.0	tgacaccttaCTATCTTACAAATGTAACAaaaaagttat	[EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] [EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[2] [1]
PhoB-phosphorylated	activator	mipAp	mipA	1866643	1866663	-146.5	catccataaaTTTTGCATAATTAATGTAAAGaccaggctcg	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[5]
PhoB-phosphorylated	activator	ydfHp	rspR	1628297	1628315	-20.0	gggttattgcTTGTCACAAAAAAGTGGTAgactcatgca	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[5]
PhoB-phosphorylated	activator	yhjCp	rcdB

Evidence:	[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins
Reference(s):	[1] Marzan LW., et al., 2013 [2] Kasahara M., et al., 1991 [3] Kim SK., et al., 1993 [4] Baek JH., et al., 2006 [5] Yang C., et al., 2012

Reference(s)
[1] Marzan LW., Hasan CM., Shimizu K., 2013, Effect of acidic condition on the metabolic regulation of Escherichia coli and its phoB mutant., Arch Microbiol 195(3):161-71
[2] Kasahara M., Makino K., Amemura M., Nakata A., Shinagawa H., 1991, Dual regulation of the ugp operon by phosphate and carbon starvation at two interspaced promoters., J Bacteriol 173(2):549-58
[3] Kim SK., Makino K., Amemura M., Shinagawa H., Nakata A., 1993, Molecular analysis of the phoH gene, belonging to the phosphate regulon in Escherichia coli., J Bacteriol 175(5):1316-24
[4] Baek JH., Lee SY., 2006, Novel gene members in the Pho regulon of Escherichia coli., FEMS Microbiol Lett 264(1):104-9
[5] Yang C., Huang TW., Wen SY., Chang CY., Tsai SF., Wu WF., Chang CH., 2012, Genome-wide PhoB binding and gene expression profiles reveal the hierarchical gene regulatory network of phosphate starvation in Escherichia coli., PLoS One 7(10):e47314
[6] Yoshida Y., Sugiyama S., Oyamada T., Yokoyama K., Kim SK., Makino K., 2011, Identification of PhoB binding sites of the yibD and ytfK promoter regions in Escherichia coli., J Microbiol 49(2):285-9
[7] Makino K., Kim SK., Shinagawa H., Amemura M., Nakata A., 1991, Molecular analysis of the cryptic and functional phn operons for phosphonate use in Escherichia coli K-12., J Bacteriol 173(8):2665-72
[8] Wanner BL., Boline JA., 1990, Mapping and molecular cloning of the phn (psiD) locus for phosphonate utilization in Escherichia coli., J Bacteriol 172(3):1186-96
[9] Murray EL., Conway T., 2005, Multiple regulators control expression of the Entner-Doudoroff aldolase (Eda) of Escherichia coli., J Bacteriol 187(3):991-1000
[10] Harris RM., Webb DC., Howitt SM., Cox GB., 2001, Characterization of PitA and PitB from Escherichia coli., J Bacteriol 183(17):5008-14