Collection of regulogs in Enterobacteriales taxonomic group

General statistics
Genomes	12
TF regulogs	127
TF regulons	812
TF binding sites	7659
RNA regulogs	18
RNA regulons	147
RNA sites	188

This collection involves all regulons that were tentatively predicted by applying integrative comparative genomic approach to a single taxonomic group of closely-related genomes. To infer the regulons operated by transcription factors (TFs), we combined the identification of TF binding sites and cross-genome comparison of regulons with the analysis of the genomic and functional context of candidate target genes. To infer the regulons operated by regulatory RNAs such as riboswitches, we identified candidate RNA regulatory elements using HMM profiles and further analyzed their genomic and functional context.

Studied genomes and reconstructed regulon statistics
	TF		RNA		Total
Genomes	Regulons	Sites	Regulons	Sites	Regulons	Sites
Citrobacter koseri ATCC BAA-895	82	858	14	19	96	877
Edwardsiella tarda EIB202	50	386	11	15	61	401
Enterobacter sp. 638	81	765	12	15	93	780
Erwinia amylovora ATCC 49946	48	355	10	13	58	368
Erwinia carotovora subsp. atroseptica SCRI1043	67	599	14	18	81	617
Escherichia coli str. K-12 substr. MG1655	84	943	13	16	97	959
Klebsiella pneumoniae subsp. pneumoniae MGH 78578	86	804	14	19	100	823
Photorhabdus luminescens subsp. laumondii TTO1	47	407	12	14	59	421
Proteus mirabilis HI4320	52	541	12	14	64	555
Salmonella typhimurium LT2	75	819	12	16	87	835
Serratia proteamaculans 568	81	648	13	17	94	665
Yersinia pestis KIM	59	534	10	12	69	546

Genomic distribution of regulons
Family	Type	Regulator													Function
AraC	TF	AraC	4 AraC Escherichia coli str. K-12 substr. MG1655	4 AraC Salmonella typhimurium LT2	4 AraC Citrobacter koseri ATCC BAA-895	6 AraC Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 AraC Enterobacter sp. 638	2 AraC Erwinia amylovora ATCC 49946	2 AraC Yersinia pestis KIM	2 AraC Serratia proteamaculans 568	2 AraC Erwinia carotovora subsp. atroseptica SCRI1043				Arabinose utilization
	TF	RhaR	1 RhaR Escherichia coli str. K-12 substr. MG1655	1 RhaR Salmonella typhimurium LT2	1 RhaR Citrobacter koseri ATCC BAA-895	1 RhaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 RhaR Enterobacter sp. 638		1 RhaR Yersinia pestis KIM		1 RhaR Erwinia carotovora subsp. atroseptica SCRI1043				Rhamnose utilization
	TF	RhaS	3 RhaS Escherichia coli str. K-12 substr. MG1655	5 RhaS Salmonella typhimurium LT2	4 RhaS Citrobacter koseri ATCC BAA-895	4 RhaS Klebsiella pneumoniae subsp. pneumoniae MGH 78578	4 RhaS Enterobacter sp. 638		3 RhaS Yersinia pestis KIM		7 RhaS Erwinia carotovora subsp. atroseptica SCRI1043				Rhamnose utilization
ArgR	TF	ArgR	15 ArgR Escherichia coli str. K-12 substr. MG1655	13 ArgR Salmonella typhimurium LT2	14 ArgR Citrobacter koseri ATCC BAA-895	15 ArgR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	13 ArgR Enterobacter sp. 638	9 ArgR Erwinia amylovora ATCC 49946	12 ArgR Yersinia pestis KIM	11 ArgR Serratia proteamaculans 568	13 ArgR Erwinia carotovora subsp. atroseptica SCRI1043	10 ArgR Edwardsiella tarda EIB202	9 ArgR Proteus mirabilis HI4320	9 ArgR Photorhabdus luminescens subsp. laumondii TTO1	Arginine biosynthesis; Arginine degradation
BirA	TF	BirA	3 BirA Escherichia coli str. K-12 substr. MG1655	2 BirA Salmonella typhimurium LT2	2 BirA Citrobacter koseri ATCC BAA-895	3 BirA Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 BirA Enterobacter sp. 638	2 BirA Erwinia amylovora ATCC 49946	3 BirA Yersinia pestis KIM	2 BirA Serratia proteamaculans 568	2 BirA Erwinia carotovora subsp. atroseptica SCRI1043	2 BirA Edwardsiella tarda EIB202	2 BirA Proteus mirabilis HI4320	2 BirA Photorhabdus luminescens subsp. laumondii TTO1	Biotin biosynthesis
CRP	TF	Crp	245 Crp Escherichia coli str. K-12 substr. MG1655	207 Crp Salmonella typhimurium LT2	204 Crp Citrobacter koseri ATCC BAA-895	196 Crp Klebsiella pneumoniae subsp. pneumoniae MGH 78578	186 Crp Enterobacter sp. 638	73 Crp Erwinia amylovora ATCC 49946	121 Crp Yersinia pestis KIM	148 Crp Serratia proteamaculans 568	105 Crp Erwinia carotovora subsp. atroseptica SCRI1043	93 Crp Edwardsiella tarda EIB202	122 Crp Proteus mirabilis HI4320	98 Crp Photorhabdus luminescens subsp. laumondii TTO1	Carbon catabolism
	TF	Fnr	82 Fnr Escherichia coli str. K-12 substr. MG1655	68 Fnr Salmonella typhimurium LT2	66 Fnr Citrobacter koseri ATCC BAA-895	56 Fnr Klebsiella pneumoniae subsp. pneumoniae MGH 78578	54 Fnr Enterobacter sp. 638	20 Fnr Erwinia amylovora ATCC 49946	46 Fnr Yersinia pestis KIM	46 Fnr Serratia proteamaculans 568	51 Fnr Erwinia carotovora subsp. atroseptica SCRI1043	39 Fnr Edwardsiella tarda EIB202	50 Fnr Proteus mirabilis HI4320	37 Fnr Photorhabdus luminescens subsp. laumondii TTO1	Energy metabolism; Anaerobic metabolism
CsoR	TF	RcnR	2 RcnR Escherichia coli str. K-12 substr. MG1655	2 RcnR Salmonella typhimurium LT2	2 RcnR Citrobacter koseri ATCC BAA-895	2 RcnR Klebsiella pneumoniae subsp. pneumoniae MGH 78578									Cobalt resistance; Nickel resistance
DeoR	TF	AgaR	3 AgaR Escherichia coli str. K-12 substr. MG1655		3 AgaR Citrobacter koseri ATCC BAA-895		3 AgaR Enterobacter sp. 638								N-acetylgalactosamine utilization
	TF	DeoR	4 DeoR Escherichia coli str. K-12 substr. MG1655	3 DeoR Salmonella typhimurium LT2	2 DeoR Citrobacter koseri ATCC BAA-895	2 DeoR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 DeoR Enterobacter sp. 638	2 DeoR Erwinia amylovora ATCC 49946	1 DeoR Yersinia pestis KIM	1 DeoR Serratia proteamaculans 568	3 DeoR Erwinia carotovora subsp. atroseptica SCRI1043	2 DeoR Edwardsiella tarda EIB202	3 DeoR Proteus mirabilis HI4320		Deoxyribonucleoside utilization
	TF	FucR	2 FucR Escherichia coli str. K-12 substr. MG1655	1 FucR Salmonella typhimurium LT2	3 FucR Citrobacter koseri ATCC BAA-895	3 FucR Klebsiella pneumoniae subsp. pneumoniae MGH 78578						1 FucR Edwardsiella tarda EIB202			Fucose utilization
	TF	GlpR	6 GlpR Escherichia coli str. K-12 substr. MG1655	6 GlpR Salmonella typhimurium LT2	6 GlpR Citrobacter koseri ATCC BAA-895	6 GlpR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 GlpR Enterobacter sp. 638	4 GlpR Erwinia amylovora ATCC 49946	3 GlpR Yersinia pestis KIM	4 GlpR Serratia proteamaculans 568	4 GlpR Erwinia carotovora subsp. atroseptica SCRI1043	4 GlpR Edwardsiella tarda EIB202	5 GlpR Proteus mirabilis HI4320	3 GlpR Photorhabdus luminescens subsp. laumondii TTO1	Glycerol utilization
	TF	SrlR	1 SrlR Escherichia coli str. K-12 substr. MG1655	1 SrlR Salmonella typhimurium LT2	1 SrlR Citrobacter koseri ATCC BAA-895	1 SrlR Klebsiella pneumoniae subsp. pneumoniae MGH 78578				1 SrlR Serratia proteamaculans 568					Sorbitol utilization
	TF	UlaR	2 UlaR Escherichia coli str. K-12 substr. MG1655	2 UlaR Salmonella typhimurium LT2	2 UlaR Citrobacter koseri ATCC BAA-895	2 UlaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578						2 UlaR Edwardsiella tarda EIB202			Ascorbate utilization
DtxR	TF	MntR	4 MntR Escherichia coli str. K-12 substr. MG1655	4 MntR Salmonella typhimurium LT2	5 MntR Citrobacter koseri ATCC BAA-895	4 MntR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	4 MntR Enterobacter sp. 638	4 MntR Erwinia amylovora ATCC 49946		2 MntR Serratia proteamaculans 568					Manganese homeostasis
FUR	TF	Fur	30 Fur Escherichia coli str. K-12 substr. MG1655	29 Fur Salmonella typhimurium LT2	49 Fur Citrobacter koseri ATCC BAA-895	34 Fur Klebsiella pneumoniae subsp. pneumoniae MGH 78578	36 Fur Enterobacter sp. 638	14 Fur Erwinia amylovora ATCC 49946	29 Fur Yersinia pestis KIM	36 Fur Serratia proteamaculans 568	36 Fur Erwinia carotovora subsp. atroseptica SCRI1043	16 Fur Edwardsiella tarda EIB202	35 Fur Proteus mirabilis HI4320	28 Fur Photorhabdus luminescens subsp. laumondii TTO1	Iron homeostasis
	TF	Zur	5 Zur Escherichia coli str. K-12 substr. MG1655	5 Zur Salmonella typhimurium LT2	11 Zur Citrobacter koseri ATCC BAA-895	5 Zur Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 Zur Enterobacter sp. 638	3 Zur Erwinia amylovora ATCC 49946	4 Zur Yersinia pestis KIM	9 Zur Serratia proteamaculans 568	6 Zur Erwinia carotovora subsp. atroseptica SCRI1043	3 Zur Edwardsiella tarda EIB202	5 Zur Proteus mirabilis HI4320	3 Zur Photorhabdus luminescens subsp. laumondii TTO1	Zinc homeostasis
Fis	TF	NorR	2 NorR Escherichia coli str. K-12 substr. MG1655	2 NorR Salmonella typhimurium LT2	2 NorR Citrobacter koseri ATCC BAA-895	2 NorR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 NorR Enterobacter sp. 638			2 NorR Serratia proteamaculans 568	2 NorR Erwinia carotovora subsp. atroseptica SCRI1043				Nitrosative stress response
	TF	NtrC	12 NtrC Escherichia coli str. K-12 substr. MG1655	7 NtrC Salmonella typhimurium LT2	10 NtrC Citrobacter koseri ATCC BAA-895	11 NtrC Klebsiella pneumoniae subsp. pneumoniae MGH 78578	11 NtrC Enterobacter sp. 638	8 NtrC Erwinia amylovora ATCC 49946	7 NtrC Yersinia pestis KIM	9 NtrC Serratia proteamaculans 568	6 NtrC Erwinia carotovora subsp. atroseptica SCRI1043	4 NtrC Edwardsiella tarda EIB202	3 NtrC Proteus mirabilis HI4320	4 NtrC Photorhabdus luminescens subsp. laumondii TTO1	Nitrogen assimilation
GntR/MocR	TF	EAM_2333						1 EAM_2333 Erwinia amylovora ATCC 49946
	TF	Ent638_1108					1 Ent638_1108 Enterobacter sp. 638
	TF	GabR				1 GabR Klebsiella pneumoniae subsp. pneumoniae MGH 78578		1 GabR Erwinia amylovora ATCC 49946	1 GabR Yersinia pestis KIM	1 GabR Serratia proteamaculans 568	1 GabR Erwinia carotovora subsp. atroseptica SCRI1043				Gamma-aminobutyrate utilization
	TF	PdxR									2 PdxR Erwinia carotovora subsp. atroseptica SCRI1043				Pyridoxine/pyridoxal homeostasis
	TF	PdxR2		2 PdxR2 Salmonella typhimurium LT2	2 PdxR2 Citrobacter koseri ATCC BAA-895	2 PdxR2 Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 PdxR2 Enterobacter sp. 638			2 PdxR2 Serratia proteamaculans 568					Pyridoxine/pyridoxal homeostasis
	TF	PdxR3			1 PdxR3 Citrobacter koseri ATCC BAA-895	1 PdxR3 Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 PdxR3 Enterobacter sp. 638								Pyridoxine biosynthesis
	TF	PdxW				1 PdxW Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 PdxW Enterobacter sp. 638								Pyridoxine/pyridoxal homeostasis
	TF	Spro_0112								1 Spro_0112 Serratia proteamaculans 568
	TF	Spro_2017								1 Spro_2017 Serratia proteamaculans 568
	TF	Spro_3347								1 Spro_3347 Serratia proteamaculans 568					Metabolite transport
	TF	Spro_3719		1 Spro_3719 Salmonella typhimurium LT2	1 Spro_3719 Citrobacter koseri ATCC BAA-895	1 Spro_3719 Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Spro_3719 Enterobacter sp. 638			1 Spro_3719 Serratia proteamaculans 568	2 Spro_3719 Erwinia carotovora subsp. atroseptica SCRI1043
	TF	TauR				1 TauR Klebsiella pneumoniae subsp. pneumoniae MGH 78578									Taurine utilization
	TF	YE4144								1 YE4144 Serratia proteamaculans 568	1 YE4144 Erwinia carotovora subsp. atroseptica SCRI1043				Metabolite transport
	TF	YdcR	1 YdcR Escherichia coli str. K-12 substr. MG1655	1 YdcR Salmonella typhimurium LT2	1 YdcR Citrobacter koseri ATCC BAA-895	2 YdcR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 YdcR Enterobacter sp. 638	1 YdcR Erwinia amylovora ATCC 49946		2 YdcR Serratia proteamaculans 568	1 YdcR Erwinia carotovora subsp. atroseptica SCRI1043		1 YdcR Proteus mirabilis HI4320	1 YdcR Photorhabdus luminescens subsp. laumondii TTO1
	TF	YjiR	1 YjiR Escherichia coli str. K-12 substr. MG1655		1 YjiR Citrobacter koseri ATCC BAA-895		1 YjiR Enterobacter sp. 638			1 YjiR Serratia proteamaculans 568	1 YjiR Erwinia carotovora subsp. atroseptica SCRI1043
GntR/Others	TF	CelR				1 CelR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 CelR Enterobacter sp. 638				1 CelR Erwinia carotovora subsp. atroseptica SCRI1043				Cellobiose utilization
	TF	DgoR	1 DgoR Escherichia coli str. K-12 substr. MG1655	1 DgoR Salmonella typhimurium LT2		1 DgoR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 DgoR Enterobacter sp. 638			2 DgoR Serratia proteamaculans 568	1 DgoR Erwinia carotovora subsp. atroseptica SCRI1043				Galactonate utilization
	TF	ExuR	4 ExuR Escherichia coli str. K-12 substr. MG1655		8 ExuR Citrobacter koseri ATCC BAA-895	7 ExuR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	7 ExuR Enterobacter sp. 638		5 ExuR Yersinia pestis KIM	7 ExuR Serratia proteamaculans 568	4 ExuR Erwinia carotovora subsp. atroseptica SCRI1043	6 ExuR Edwardsiella tarda EIB202			Galacturonate utilization
	TF	FadR	12 FadR Escherichia coli str. K-12 substr. MG1655	12 FadR Salmonella typhimurium LT2	11 FadR Citrobacter koseri ATCC BAA-895	12 FadR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	12 FadR Enterobacter sp. 638	7 FadR Erwinia amylovora ATCC 49946	11 FadR Yersinia pestis KIM	11 FadR Serratia proteamaculans 568	9 FadR Erwinia carotovora subsp. atroseptica SCRI1043	4 FadR Edwardsiella tarda EIB202	9 FadR Proteus mirabilis HI4320	11 FadR Photorhabdus luminescens subsp. laumondii TTO1	Fatty acid degradation
	TF	GlcC	2 GlcC Escherichia coli str. K-12 substr. MG1655												Glycolate utilization
	TF	HpxS				1 HpxS Klebsiella pneumoniae subsp. pneumoniae MGH 78578		1 HpxS Erwinia amylovora ATCC 49946		1 HpxS Serratia proteamaculans 568					Allantoin utilization
	TF	HutC		1 HutC Salmonella typhimurium LT2	3 HutC Citrobacter koseri ATCC BAA-895	4 HutC Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 HutC Enterobacter sp. 638	4 HutC Erwinia amylovora ATCC 49946	4 HutC Yersinia pestis KIM	4 HutC Serratia proteamaculans 568				2 HutC Photorhabdus luminescens subsp. laumondii TTO1	Histidine utilization
	TF	HypR						1 HypR Erwinia amylovora ATCC 49946							Proline and 4-hydrohyproline utilization
	TF	LldR	1 LldR Escherichia coli str. K-12 substr. MG1655	1 LldR Salmonella typhimurium LT2	1 LldR Citrobacter koseri ATCC BAA-895	1 LldR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 LldR Enterobacter sp. 638								Lactate utilization
	TF	NanR	3 NanR Escherichia coli str. K-12 substr. MG1655	1 NanR Salmonella typhimurium LT2	1 NanR Citrobacter koseri ATCC BAA-895		1 NanR Enterobacter sp. 638					1 NanR Edwardsiella tarda EIB202			Sialic acid utilization
	TF	PMI3555											2 PMI3555 Proteus mirabilis HI4320	2 PMI3555 Photorhabdus luminescens subsp. laumondii TTO1
	TF	PdhR	6 PdhR Escherichia coli str. K-12 substr. MG1655	5 PdhR Salmonella typhimurium LT2	5 PdhR Citrobacter koseri ATCC BAA-895	4 PdhR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 PdhR Enterobacter sp. 638	1 PdhR Erwinia amylovora ATCC 49946	4 PdhR Yersinia pestis KIM	3 PdhR Serratia proteamaculans 568	2 PdhR Erwinia carotovora subsp. atroseptica SCRI1043	3 PdhR Edwardsiella tarda EIB202	3 PdhR Proteus mirabilis HI4320	2 PdhR Photorhabdus luminescens subsp. laumondii TTO1	Pyruvate metabolism
	TF	PhnF	1 PhnF Escherichia coli str. K-12 substr. MG1655		1 PhnF Citrobacter koseri ATCC BAA-895	1 PhnF Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 PhnF Enterobacter sp. 638		1 PhnF Yersinia pestis KIM	1 PhnF Serratia proteamaculans 568					Phosphonate utilization
	TF	PhnR		3 PhnR Salmonella typhimurium LT2		3 PhnR Klebsiella pneumoniae subsp. pneumoniae MGH 78578									Phosphonate utilization; 2-aminoethylphosphonate utilization
	TF	PhnR1								2 PhnR1 Serratia proteamaculans 568					2-aminoethylphosphonate utilization
	TF	RspR	1 RspR Escherichia coli str. K-12 substr. MG1655	1 RspR Salmonella typhimurium LT2	2 RspR Citrobacter koseri ATCC BAA-895	2 RspR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 RspR Enterobacter sp. 638			1 RspR Serratia proteamaculans 568	1 RspR Erwinia carotovora subsp. atroseptica SCRI1043				L-gulonate utilization
	TF	Spro_0637								2 Spro_0637 Serratia proteamaculans 568
	TF	Spro_1420								1 Spro_1420 Serratia proteamaculans 568	2 Spro_1420 Erwinia carotovora subsp. atroseptica SCRI1043				Nitrogen metabolism
	TF	UxuR	9 UxuR Escherichia coli str. K-12 substr. MG1655	4 UxuR Salmonella typhimurium LT2					6 UxuR Yersinia pestis KIM		4 UxuR Erwinia carotovora subsp. atroseptica SCRI1043	6 UxuR Edwardsiella tarda EIB202		3 UxuR Photorhabdus luminescens subsp. laumondii TTO1	Glucuronate utilization
	TF	YihL	1 YihL Escherichia coli str. K-12 substr. MG1655							1 YihL Serratia proteamaculans 568		1 YihL Edwardsiella tarda EIB202
HxlR	TF	QorR	2 QorR Escherichia coli str. K-12 substr. MG1655	2 QorR Salmonella typhimurium LT2	2 QorR Citrobacter koseri ATCC BAA-895	2 QorR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 QorR Enterobacter sp. 638		1 QorR Yersinia pestis KIM		2 QorR Erwinia carotovora subsp. atroseptica SCRI1043		2 QorR Proteus mirabilis HI4320		Energy metabolism
IclR	TF	AllR	3 AllR Escherichia coli str. K-12 substr. MG1655	3 AllR Salmonella typhimurium LT2											Allantoin utilization
	TF	IclR	1 IclR Escherichia coli str. K-12 substr. MG1655	1 IclR Salmonella typhimurium LT2	1 IclR Citrobacter koseri ATCC BAA-895	1 IclR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 IclR Enterobacter sp. 638		1 IclR Yersinia pestis KIM	1 IclR Serratia proteamaculans 568	1 IclR Erwinia carotovora subsp. atroseptica SCRI1043		1 IclR Proteus mirabilis HI4320	1 IclR Photorhabdus luminescens subsp. laumondii TTO1	Glyoxylate bypass
	TF	KdgR	10 KdgR Escherichia coli str. K-12 substr. MG1655	12 KdgR Salmonella typhimurium LT2	17 KdgR Citrobacter koseri ATCC BAA-895	18 KdgR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	21 KdgR Enterobacter sp. 638		14 KdgR Yersinia pestis KIM	5 KdgR Serratia proteamaculans 568	31 KdgR Erwinia carotovora subsp. atroseptica SCRI1043	5 KdgR Edwardsiella tarda EIB202			Pectin and polygalacturonate utlization
	TF	YiaJ	2 YiaJ Escherichia coli str. K-12 substr. MG1655	2 YiaJ Salmonella typhimurium LT2	2 YiaJ Citrobacter koseri ATCC BAA-895					2 YiaJ Serratia proteamaculans 568					L-lyxose utilization
LacI	TF	AscG	2 AscG Escherichia coli str. K-12 substr. MG1655		3 AscG Citrobacter koseri ATCC BAA-895	4 AscG Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 AscG Enterobacter sp. 638	2 AscG Erwinia amylovora ATCC 49946		3 AscG Serratia proteamaculans 568	5 AscG Erwinia carotovora subsp. atroseptica SCRI1043				Beta-glucosides utilization; Cellobiose utilization
	TF	BglR							2 BglR Yersinia pestis KIM						Beta-glucosides utilization
	TF	CelR2							1 CelR2 Yersinia pestis KIM	1 CelR2 Serratia proteamaculans 568					Cellobiose utilization
	TF	CscR				2 CscR Klebsiella pneumoniae subsp. pneumoniae MGH 78578				1 CscR Serratia proteamaculans 568			2 CscR Proteus mirabilis HI4320		Sucrose utilization
	TF	ECA4246									1 ECA4246 Erwinia carotovora subsp. atroseptica SCRI1043				Sugar utilization
	TF	EbgR	2 EbgR Escherichia coli str. K-12 substr. MG1655							3 EbgR Serratia proteamaculans 568					Galactosides utilization
	TF	FruR	24 FruR Escherichia coli str. K-12 substr. MG1655	24 FruR Salmonella typhimurium LT2	22 FruR Citrobacter koseri ATCC BAA-895	22 FruR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	22 FruR Enterobacter sp. 638	13 FruR Erwinia amylovora ATCC 49946	17 FruR Yersinia pestis KIM	18 FruR Serratia proteamaculans 568	14 FruR Erwinia carotovora subsp. atroseptica SCRI1043	13 FruR Edwardsiella tarda EIB202	12 FruR Proteus mirabilis HI4320	12 FruR Photorhabdus luminescens subsp. laumondii TTO1	Central carbohydrate metabolism
	TF	GalR/GalS	6 GalR/GalS Escherichia coli str. K-12 substr. MG1655	4 GalR/GalS Salmonella typhimurium LT2	7 GalR/GalS Citrobacter koseri ATCC BAA-895	7 GalR/GalS Klebsiella pneumoniae subsp. pneumoniae MGH 78578	7 GalR/GalS Enterobacter sp. 638	4 GalR/GalS Erwinia amylovora ATCC 49946	3 GalR/GalS Yersinia pestis KIM	5 GalR/GalS Serratia proteamaculans 568	5 GalR/GalS Erwinia carotovora subsp. atroseptica SCRI1043	3 GalR/GalS Edwardsiella tarda EIB202	3 GalR/GalS Proteus mirabilis HI4320		Galactose utilization
	TF	GntR	5 GntR Escherichia coli str. K-12 substr. MG1655	5 GntR Salmonella typhimurium LT2	4 GntR Citrobacter koseri ATCC BAA-895	3 GntR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 GntR Enterobacter sp. 638	2 GntR Erwinia amylovora ATCC 49946	3 GntR Yersinia pestis KIM	5 GntR Serratia proteamaculans 568	5 GntR Erwinia carotovora subsp. atroseptica SCRI1043	1 GntR Edwardsiella tarda EIB202	2 GntR Proteus mirabilis HI4320	1 GntR Photorhabdus luminescens subsp. laumondii TTO1	Gluconate utilization
	TF	IdnR	2 IdnR Escherichia coli str. K-12 substr. MG1655	2 IdnR Salmonella typhimurium LT2	1 IdnR Citrobacter koseri ATCC BAA-895					2 IdnR Serratia proteamaculans 568					Idonate utilization
	TF	LacI	1 LacI Escherichia coli str. K-12 substr. MG1655		1 LacI Citrobacter koseri ATCC BAA-895	1 LacI Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 LacI Enterobacter sp. 638				1 LacI Erwinia carotovora subsp. atroseptica SCRI1043				Lactose utilization
	TF	LfaR			2 LfaR Citrobacter koseri ATCC BAA-895	2 LfaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 LfaR Enterobacter sp. 638		2 LfaR Yersinia pestis KIM	2 LfaR Serratia proteamaculans 568	2 LfaR Erwinia carotovora subsp. atroseptica SCRI1043				Sugar utilization
	TF	MalI	2 MalI Escherichia coli str. K-12 substr. MG1655		2 MalI Citrobacter koseri ATCC BAA-895	2 MalI Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 MalI Enterobacter sp. 638			2 MalI Serratia proteamaculans 568					Maltose utilization
	TF	PMI2934											1 PMI2934 Proteus mirabilis HI4320		Sugar utilization
	TF	PtsR					1 PtsR Enterobacter sp. 638								Sugar utilization
	TF	PtxS			1 PtxS Citrobacter koseri ATCC BAA-895	1 PtxS Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 PtxS Enterobacter sp. 638	1 PtxS Erwinia amylovora ATCC 49946		1 PtxS Serratia proteamaculans 568					2-ketogluconate utilization
	TF	PurR	28 PurR Escherichia coli str. K-12 substr. MG1655	26 PurR Salmonella typhimurium LT2	27 PurR Citrobacter koseri ATCC BAA-895	27 PurR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	27 PurR Enterobacter sp. 638	24 PurR Erwinia amylovora ATCC 49946	20 PurR Yersinia pestis KIM	23 PurR Serratia proteamaculans 568	22 PurR Erwinia carotovora subsp. atroseptica SCRI1043	20 PurR Edwardsiella tarda EIB202	24 PurR Proteus mirabilis HI4320	15 PurR Photorhabdus luminescens subsp. laumondii TTO1	Purine metabolism
	TF	RafR				1 RafR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 RafR Enterobacter sp. 638		1 RafR Yersinia pestis KIM		1 RafR Erwinia carotovora subsp. atroseptica SCRI1043				Raffinose utilization
	TF	RbsR	1 RbsR Escherichia coli str. K-12 substr. MG1655	1 RbsR Salmonella typhimurium LT2	1 RbsR Citrobacter koseri ATCC BAA-895	1 RbsR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 RbsR Enterobacter sp. 638	1 RbsR Erwinia amylovora ATCC 49946		1 RbsR Serratia proteamaculans 568	1 RbsR Erwinia carotovora subsp. atroseptica SCRI1043	1 RbsR Edwardsiella tarda EIB202	1 RbsR Proteus mirabilis HI4320	1 RbsR Photorhabdus luminescens subsp. laumondii TTO1	Ribose utilization
	TF	RhiR									2 RhiR Erwinia carotovora subsp. atroseptica SCRI1043				Rhamnogalacturonides utilization
	TF	STM1555		1 STM1555 Salmonella typhimurium LT2						1 STM1555 Serratia proteamaculans 568				2 STM1555 Photorhabdus luminescens subsp. laumondii TTO1	Sugar utilization
	TF	ScrR			2 ScrR Citrobacter koseri ATCC BAA-895	2 ScrR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 ScrR Enterobacter sp. 638	2 ScrR Erwinia amylovora ATCC 49946		2 ScrR Serratia proteamaculans 568	2 ScrR Erwinia carotovora subsp. atroseptica SCRI1043				Sucrose utilization
	TF	SgaR		2 SgaR Salmonella typhimurium LT2	2 SgaR Citrobacter koseri ATCC BAA-895	2 SgaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 SgaR Enterobacter sp. 638		2 SgaR Yersinia pestis KIM		2 SgaR Erwinia carotovora subsp. atroseptica SCRI1043	2 SgaR Edwardsiella tarda EIB202	2 SgaR Proteus mirabilis HI4320	2 SgaR Photorhabdus luminescens subsp. laumondii TTO1	Ascorbate utilization
	TF	TalR		2 TalR Salmonella typhimurium LT2							2 TalR Erwinia carotovora subsp. atroseptica SCRI1043				L-talarate utilization
	TF	TreR	1 TreR Escherichia coli str. K-12 substr. MG1655		1 TreR Citrobacter koseri ATCC BAA-895	1 TreR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 TreR Enterobacter sp. 638		1 TreR Yersinia pestis KIM	1 TreR Serratia proteamaculans 568			1 TreR Proteus mirabilis HI4320	1 TreR Photorhabdus luminescens subsp. laumondii TTO1	Trehalose utilization
	TF	XltR							1 XltR Yersinia pestis KIM						Xylitol utilization
	TF	YcjW	2 YcjW Escherichia coli str. K-12 substr. MG1655				2 YcjW Enterobacter sp. 638								Sugar utilization
	TF	y3436							2 y3436 Yersinia pestis KIM						Sugar utilization
LexA	TF	LexA	26 LexA Escherichia coli str. K-12 substr. MG1655	27 LexA Salmonella typhimurium LT2	21 LexA Citrobacter koseri ATCC BAA-895	22 LexA Klebsiella pneumoniae subsp. pneumoniae MGH 78578	23 LexA Enterobacter sp. 638	19 LexA Erwinia amylovora ATCC 49946	15 LexA Yersinia pestis KIM	16 LexA Serratia proteamaculans 568	15 LexA Erwinia carotovora subsp. atroseptica SCRI1043	15 LexA Edwardsiella tarda EIB202	16 LexA Proteus mirabilis HI4320	15 LexA Photorhabdus luminescens subsp. laumondii TTO1	SOS response
LuxR	TF	NarP	26 NarP Escherichia coli str. K-12 substr. MG1655	23 NarP Salmonella typhimurium LT2	25 NarP Citrobacter koseri ATCC BAA-895				6 NarP Yersinia pestis KIM	12 NarP Serratia proteamaculans 568	13 NarP Erwinia carotovora subsp. atroseptica SCRI1043	6 NarP Edwardsiella tarda EIB202	4 NarP Proteus mirabilis HI4320	1 NarP Photorhabdus luminescens subsp. laumondii TTO1	Nitrate and nitrite respiration
	TF	TtrR		2 TtrR Salmonella typhimurium LT2						2 TtrR Serratia proteamaculans 568		2 TtrR Edwardsiella tarda EIB202	2 TtrR Proteus mirabilis HI4320		Tetrathionate reduction
LysR	TF	AbgR	2 AbgR Escherichia coli str. K-12 substr. MG1655			2 AbgR Klebsiella pneumoniae subsp. pneumoniae MGH 78578				2 AbgR Serratia proteamaculans 568				2 AbgR Photorhabdus luminescens subsp. laumondii TTO1	p-aminobenzoyl-glutamate utilization
	TF	GcvA	2 GcvA Escherichia coli str. K-12 substr. MG1655	2 GcvA Salmonella typhimurium LT2	2 GcvA Citrobacter koseri ATCC BAA-895	2 GcvA Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 GcvA Enterobacter sp. 638	2 GcvA Erwinia amylovora ATCC 49946	2 GcvA Yersinia pestis KIM	2 GcvA Serratia proteamaculans 568	2 GcvA Erwinia carotovora subsp. atroseptica SCRI1043	2 GcvA Edwardsiella tarda EIB202	2 GcvA Proteus mirabilis HI4320	2 GcvA Photorhabdus luminescens subsp. laumondii TTO1	Glycine metabolism
	TF	IlvY	2 IlvY Escherichia coli str. K-12 substr. MG1655	2 IlvY Salmonella typhimurium LT2	2 IlvY Citrobacter koseri ATCC BAA-895	2 IlvY Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 IlvY Enterobacter sp. 638	2 IlvY Erwinia amylovora ATCC 49946	2 IlvY Yersinia pestis KIM	2 IlvY Serratia proteamaculans 568	2 IlvY Erwinia carotovora subsp. atroseptica SCRI1043	2 IlvY Edwardsiella tarda EIB202	2 IlvY Proteus mirabilis HI4320	2 IlvY Photorhabdus luminescens subsp. laumondii TTO1	Branched-chain amino acid biosynthesis
	TF	LeuO	3 LeuO Escherichia coli str. K-12 substr. MG1655	2 LeuO Salmonella typhimurium LT2	1 LeuO Citrobacter koseri ATCC BAA-895	1 LeuO Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 LeuO Enterobacter sp. 638		1 LeuO Yersinia pestis KIM	1 LeuO Serratia proteamaculans 568		1 LeuO Edwardsiella tarda EIB202	1 LeuO Proteus mirabilis HI4320	2 LeuO Photorhabdus luminescens subsp. laumondii TTO1
	TF	LysR	2 LysR Escherichia coli str. K-12 substr. MG1655	2 LysR Salmonella typhimurium LT2	2 LysR Citrobacter koseri ATCC BAA-895	2 LysR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 LysR Enterobacter sp. 638	2 LysR Erwinia amylovora ATCC 49946	2 LysR Yersinia pestis KIM	2 LysR Serratia proteamaculans 568	2 LysR Erwinia carotovora subsp. atroseptica SCRI1043	2 LysR Edwardsiella tarda EIB202	2 LysR Proteus mirabilis HI4320	2 LysR Photorhabdus luminescens subsp. laumondii TTO1	Lysine biosynthesis
	TF	MetR	8 MetR Escherichia coli str. K-12 substr. MG1655	8 MetR Salmonella typhimurium LT2	10 MetR Citrobacter koseri ATCC BAA-895	11 MetR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	10 MetR Enterobacter sp. 638	7 MetR Erwinia amylovora ATCC 49946	7 MetR Yersinia pestis KIM	10 MetR Serratia proteamaculans 568	8 MetR Erwinia carotovora subsp. atroseptica SCRI1043	5 MetR Edwardsiella tarda EIB202	9 MetR Proteus mirabilis HI4320	6 MetR Photorhabdus luminescens subsp. laumondii TTO1	Methionine biosynthesis
	TF	NhaR	1 NhaR Escherichia coli str. K-12 substr. MG1655	1 NhaR Salmonella typhimurium LT2	1 NhaR Citrobacter koseri ATCC BAA-895	1 NhaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 NhaR Enterobacter sp. 638		1 NhaR Yersinia pestis KIM	1 NhaR Serratia proteamaculans 568	1 NhaR Erwinia carotovora subsp. atroseptica SCRI1043	1 NhaR Edwardsiella tarda EIB202	1 NhaR Proteus mirabilis HI4320	1 NhaR Photorhabdus luminescens subsp. laumondii TTO1	Osmotic stress response
	TF	XapR	1 XapR Escherichia coli str. K-12 substr. MG1655		1 XapR Citrobacter koseri ATCC BAA-895		1 XapR Enterobacter sp. 638					1 XapR Edwardsiella tarda EIB202			Xanthosine utilization
MarR	TF	MarR	1 MarR Escherichia coli str. K-12 substr. MG1655	1 MarR Salmonella typhimurium LT2	1 MarR Citrobacter koseri ATCC BAA-895	1 MarR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 MarR Enterobacter sp. 638								Antibiotic resistance
	TF	MprA	2 MprA Escherichia coli str. K-12 substr. MG1655	2 MprA Salmonella typhimurium LT2	2 MprA Citrobacter koseri ATCC BAA-895	2 MprA Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 MprA Enterobacter sp. 638	2 MprA Erwinia amylovora ATCC 49946	2 MprA Yersinia pestis KIM	2 MprA Serratia proteamaculans 568	2 MprA Erwinia carotovora subsp. atroseptica SCRI1043	2 MprA Edwardsiella tarda EIB202	1 MprA Proteus mirabilis HI4320	2 MprA Photorhabdus luminescens subsp. laumondii TTO1	Multidrug resistance
MerR	TF	CueR	2 CueR Escherichia coli str. K-12 substr. MG1655	3 CueR Salmonella typhimurium LT2	2 CueR Citrobacter koseri ATCC BAA-895	3 CueR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 CueR Enterobacter sp. 638	3 CueR Erwinia amylovora ATCC 49946	3 CueR Yersinia pestis KIM	3 CueR Serratia proteamaculans 568	2 CueR Erwinia carotovora subsp. atroseptica SCRI1043	2 CueR Edwardsiella tarda EIB202	3 CueR Proteus mirabilis HI4320	2 CueR Photorhabdus luminescens subsp. laumondii TTO1	Copper resistance
	TF	SoxR	2 SoxR Escherichia coli str. K-12 substr. MG1655	2 SoxR Salmonella typhimurium LT2	2 SoxR Citrobacter koseri ATCC BAA-895	3 SoxR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 SoxR Enterobacter sp. 638	2 SoxR Erwinia amylovora ATCC 49946							Superoxide stress response
	TF	ZntR	1 ZntR Escherichia coli str. K-12 substr. MG1655	1 ZntR Salmonella typhimurium LT2	1 ZntR Citrobacter koseri ATCC BAA-895	1 ZntR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 ZntR Enterobacter sp. 638	1 ZntR Erwinia amylovora ATCC 49946	1 ZntR Yersinia pestis KIM	1 ZntR Serratia proteamaculans 568		1 ZntR Edwardsiella tarda EIB202	1 ZntR Proteus mirabilis HI4320	1 ZntR Photorhabdus luminescens subsp. laumondii TTO1	Zinc resistance
MetJ	TF	MetJ	15 MetJ Escherichia coli str. K-12 substr. MG1655	12 MetJ Salmonella typhimurium LT2	18 MetJ Citrobacter koseri ATCC BAA-895	20 MetJ Klebsiella pneumoniae subsp. pneumoniae MGH 78578	19 MetJ Enterobacter sp. 638	12 MetJ Erwinia amylovora ATCC 49946	9 MetJ Yersinia pestis KIM	18 MetJ Serratia proteamaculans 568	17 MetJ Erwinia carotovora subsp. atroseptica SCRI1043	7 MetJ Edwardsiella tarda EIB202	10 MetJ Proteus mirabilis HI4320	10 MetJ Photorhabdus luminescens subsp. laumondii TTO1	Methionine metabolism; Methionine biosynthesis
ModE	TF	ModE	5 ModE Escherichia coli str. K-12 substr. MG1655	6 ModE Salmonella typhimurium LT2	6 ModE Citrobacter koseri ATCC BAA-895	6 ModE Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 ModE Enterobacter sp. 638	2 ModE Erwinia amylovora ATCC 49946	3 ModE Yersinia pestis KIM	5 ModE Serratia proteamaculans 568	5 ModE Erwinia carotovora subsp. atroseptica SCRI1043	5 ModE Edwardsiella tarda EIB202	3 ModE Proteus mirabilis HI4320	1 ModE Photorhabdus luminescens subsp. laumondii TTO1	Molybdopterin biosynthesis; Molybdenum homeostasis
NadR	TF	NadR	3 NadR Escherichia coli str. K-12 substr. MG1655	3 NadR Salmonella typhimurium LT2	3 NadR Citrobacter koseri ATCC BAA-895	3 NadR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 NadR Enterobacter sp. 638	1 NadR Erwinia amylovora ATCC 49946	1 NadR Yersinia pestis KIM	3 NadR Serratia proteamaculans 568	2 NadR Erwinia carotovora subsp. atroseptica SCRI1043		2 NadR Proteus mirabilis HI4320	1 NadR Photorhabdus luminescens subsp. laumondii TTO1	NAD biosynthesis
NikR	TF	NikR	1 NikR Escherichia coli str. K-12 substr. MG1655	2 NikR Salmonella typhimurium LT2	1 NikR Citrobacter koseri ATCC BAA-895	1 NikR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 NikR Enterobacter sp. 638					3 NikR Edwardsiella tarda EIB202			Nickel homeostasis
NrdR	TF	NrdR	3 NrdR Escherichia coli str. K-12 substr. MG1655	3 NrdR Salmonella typhimurium LT2	3 NrdR Citrobacter koseri ATCC BAA-895	3 NrdR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 NrdR Enterobacter sp. 638	3 NrdR Erwinia amylovora ATCC 49946	3 NrdR Yersinia pestis KIM	3 NrdR Serratia proteamaculans 568	3 NrdR Erwinia carotovora subsp. atroseptica SCRI1043	2 NrdR Edwardsiella tarda EIB202	3 NrdR Proteus mirabilis HI4320	3 NrdR Photorhabdus luminescens subsp. laumondii TTO1	Ribonucleotide reductases
NrtR	TF	NrtR											2 NrtR Proteus mirabilis HI4320		NAD biosynthesis
ROK	TF	NagC	8 NagC Escherichia coli str. K-12 substr. MG1655	6 NagC Salmonella typhimurium LT2	5 NagC Citrobacter koseri ATCC BAA-895	4 NagC Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 NagC Enterobacter sp. 638	2 NagC Erwinia amylovora ATCC 49946	5 NagC Yersinia pestis KIM	4 NagC Serratia proteamaculans 568	3 NagC Erwinia carotovora subsp. atroseptica SCRI1043	3 NagC Edwardsiella tarda EIB202	4 NagC Proteus mirabilis HI4320	3 NagC Photorhabdus luminescens subsp. laumondii TTO1	N-acetylglucosamine utilization
RpiR	TF	AlsR	2 AlsR Escherichia coli str. K-12 substr. MG1655		2 AlsR Citrobacter koseri ATCC BAA-895										Allose utilization
	TF	HexR	3 HexR Escherichia coli str. K-12 substr. MG1655	4 HexR Salmonella typhimurium LT2	4 HexR Citrobacter koseri ATCC BAA-895	4 HexR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	4 HexR Enterobacter sp. 638		3 HexR Yersinia pestis KIM	4 HexR Serratia proteamaculans 568	4 HexR Erwinia carotovora subsp. atroseptica SCRI1043	3 HexR Edwardsiella tarda EIB202	4 HexR Proteus mirabilis HI4320	3 HexR Photorhabdus luminescens subsp. laumondii TTO1	Central carbohydrate metabolism
	TF	MurR	2 MurR Escherichia coli str. K-12 substr. MG1655		2 MurR Citrobacter koseri ATCC BAA-895								1 MurR Proteus mirabilis HI4320		N-acetylmuramate utilization
	TF	NanR (SiaQ)					2 NanR (SiaQ) Enterobacter sp. 638								Sialic acid utilization
	TF	SiaR		2 SiaR Salmonella typhimurium LT2					3 SiaR Yersinia pestis KIM			3 SiaR Edwardsiella tarda EIB202	2 SiaR Proteus mirabilis HI4320		Sialic acid utilization
Rrf2	TF	IscR	3 IscR Escherichia coli str. K-12 substr. MG1655	3 IscR Salmonella typhimurium LT2	3 IscR Citrobacter koseri ATCC BAA-895	3 IscR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 IscR Enterobacter sp. 638	2 IscR Erwinia amylovora ATCC 49946	3 IscR Yersinia pestis KIM	3 IscR Serratia proteamaculans 568	2 IscR Erwinia carotovora subsp. atroseptica SCRI1043	3 IscR Edwardsiella tarda EIB202	2 IscR Proteus mirabilis HI4320	3 IscR Photorhabdus luminescens subsp. laumondii TTO1	Iron-sulfur cluster biogenesis
	TF	NsrR	10 NsrR Escherichia coli str. K-12 substr. MG1655	11 NsrR Salmonella typhimurium LT2	8 NsrR Citrobacter koseri ATCC BAA-895	6 NsrR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	8 NsrR Enterobacter sp. 638		4 NsrR Yersinia pestis KIM	2 NsrR Serratia proteamaculans 568	5 NsrR Erwinia carotovora subsp. atroseptica SCRI1043	4 NsrR Edwardsiella tarda EIB202	6 NsrR Proteus mirabilis HI4320	3 NsrR Photorhabdus luminescens subsp. laumondii TTO1	Nitrosative stress response
SdaR	TF	SdaR	4 SdaR Escherichia coli str. K-12 substr. MG1655	4 SdaR Salmonella typhimurium LT2	4 SdaR Citrobacter koseri ATCC BAA-895	4 SdaR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	4 SdaR Enterobacter sp. 638				4 SdaR Erwinia carotovora subsp. atroseptica SCRI1043				Glucarate utilization; Galactarate utilization
SorC	TF	LsrR	2 LsrR Escherichia coli str. K-12 substr. MG1655	2 LsrR Salmonella typhimurium LT2		2 LsrR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 LsrR Enterobacter sp. 638		1 LsrR Yersinia pestis KIM					2 LsrR Photorhabdus luminescens subsp. laumondii TTO1	Quorum sensing; Biofilm formation
	TF	SorC				1 SorC Klebsiella pneumoniae subsp. pneumoniae MGH 78578									Sorbose utilization
TetR	TF	AcrR	2 AcrR Escherichia coli str. K-12 substr. MG1655	2 AcrR Salmonella typhimurium LT2	2 AcrR Citrobacter koseri ATCC BAA-895	2 AcrR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 AcrR Enterobacter sp. 638	2 AcrR Erwinia amylovora ATCC 49946	2 AcrR Yersinia pestis KIM	2 AcrR Serratia proteamaculans 568	2 AcrR Erwinia carotovora subsp. atroseptica SCRI1043	2 AcrR Edwardsiella tarda EIB202	2 AcrR Proteus mirabilis HI4320	2 AcrR Photorhabdus luminescens subsp. laumondii TTO1	Multidrug resistance
	TF	BetI	2 BetI Escherichia coli str. K-12 substr. MG1655		2 BetI Citrobacter koseri ATCC BAA-895	2 BetI Klebsiella pneumoniae subsp. pneumoniae MGH 78578		2 BetI Erwinia amylovora ATCC 49946		2 BetI Serratia proteamaculans 568	2 BetI Erwinia carotovora subsp. atroseptica SCRI1043		2 BetI Proteus mirabilis HI4320		Glycine betaine synthesis
	TF	FabR	3 FabR Escherichia coli str. K-12 substr. MG1655	3 FabR Salmonella typhimurium LT2	3 FabR Citrobacter koseri ATCC BAA-895	3 FabR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 FabR Enterobacter sp. 638	3 FabR Erwinia amylovora ATCC 49946	4 FabR Yersinia pestis KIM	4 FabR Serratia proteamaculans 568	4 FabR Erwinia carotovora subsp. atroseptica SCRI1043	4 FabR Edwardsiella tarda EIB202	3 FabR Proteus mirabilis HI4320	3 FabR Photorhabdus luminescens subsp. laumondii TTO1	Fatty acid biosynthesis
	TF	RutR	3 RutR Escherichia coli str. K-12 substr. MG1655	1 RutR Salmonella typhimurium LT2	1 RutR Citrobacter koseri ATCC BAA-895	3 RutR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 RutR Enterobacter sp. 638	1 RutR Erwinia amylovora ATCC 49946		2 RutR Serratia proteamaculans 568					Pyrimidine utilization
TrpR	TF	TrpR	5 TrpR Escherichia coli str. K-12 substr. MG1655	5 TrpR Salmonella typhimurium LT2	5 TrpR Citrobacter koseri ATCC BAA-895	4 TrpR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	5 TrpR Enterobacter sp. 638	3 TrpR Erwinia amylovora ATCC 49946	3 TrpR Yersinia pestis KIM	3 TrpR Serratia proteamaculans 568	2 TrpR Erwinia carotovora subsp. atroseptica SCRI1043	4 TrpR Edwardsiella tarda EIB202	2 TrpR Proteus mirabilis HI4320	2 TrpR Photorhabdus luminescens subsp. laumondii TTO1	Tryptophan biosynthesis
TyrR	TF	TyrR	8 TyrR Escherichia coli str. K-12 substr. MG1655	8 TyrR Salmonella typhimurium LT2	10 TyrR Citrobacter koseri ATCC BAA-895	8 TyrR Klebsiella pneumoniae subsp. pneumoniae MGH 78578	8 TyrR Enterobacter sp. 638	4 TyrR Erwinia amylovora ATCC 49946	5 TyrR Yersinia pestis KIM	6 TyrR Serratia proteamaculans 568	4 TyrR Erwinia carotovora subsp. atroseptica SCRI1043	4 TyrR Edwardsiella tarda EIB202	5 TyrR Proteus mirabilis HI4320	4 TyrR Photorhabdus luminescens subsp. laumondii TTO1	Aromatic amino acid metabolism
[Other]	TF	PaaX	2 PaaX Escherichia coli str. K-12 substr. MG1655			2 PaaX Klebsiella pneumoniae subsp. pneumoniae MGH 78578				2 PaaX Serratia proteamaculans 568					Phenylacetic acid degradation
RF00050	RNA	FMN	1 FMN Escherichia coli str. K-12 substr. MG1655	1 FMN Salmonella typhimurium LT2	1 FMN Citrobacter koseri ATCC BAA-895	1 FMN Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 FMN Enterobacter sp. 638	1 FMN Erwinia amylovora ATCC 49946	1 FMN Yersinia pestis KIM	1 FMN Serratia proteamaculans 568	1 FMN Erwinia carotovora subsp. atroseptica SCRI1043	1 FMN Edwardsiella tarda EIB202	1 FMN Proteus mirabilis HI4320	1 FMN Photorhabdus luminescens subsp. laumondii TTO1	Riboflavin biosynthesis
RF00059	RNA	TPP	3 TPP Escherichia coli str. K-12 substr. MG1655	3 TPP Salmonella typhimurium LT2	3 TPP Citrobacter koseri ATCC BAA-895	4 TPP Klebsiella pneumoniae subsp. pneumoniae MGH 78578	3 TPP Enterobacter sp. 638	4 TPP Erwinia amylovora ATCC 49946	3 TPP Yersinia pestis KIM	4 TPP Serratia proteamaculans 568	3 TPP Erwinia carotovora subsp. atroseptica SCRI1043	3 TPP Edwardsiella tarda EIB202	3 TPP Proteus mirabilis HI4320	2 TPP Photorhabdus luminescens subsp. laumondii TTO1	Thiamine biosynthesis
RF00080	RNA	yybP-ykoY	2 yybP-ykoY Escherichia coli str. K-12 substr. MG1655	2 yybP-ykoY Salmonella typhimurium LT2	2 yybP-ykoY Citrobacter koseri ATCC BAA-895	2 yybP-ykoY Klebsiella pneumoniae subsp. pneumoniae MGH 78578	2 yybP-ykoY Enterobacter sp. 638	1 yybP-ykoY Erwinia amylovora ATCC 49946	1 yybP-ykoY Yersinia pestis KIM	2 yybP-ykoY Serratia proteamaculans 568	2 yybP-ykoY Erwinia carotovora subsp. atroseptica SCRI1043	2 yybP-ykoY Edwardsiella tarda EIB202	1 yybP-ykoY Proteus mirabilis HI4320	2 yybP-ykoY Photorhabdus luminescens subsp. laumondii TTO1
RF00114	RNA	S15	1 S15 Escherichia coli str. K-12 substr. MG1655	1 S15 Salmonella typhimurium LT2	1 S15 Citrobacter koseri ATCC BAA-895	1 S15 Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 S15 Enterobacter sp. 638	1 S15 Erwinia amylovora ATCC 49946	1 S15 Yersinia pestis KIM	1 S15 Serratia proteamaculans 568	1 S15 Erwinia carotovora subsp. atroseptica SCRI1043	1 S15 Edwardsiella tarda EIB202	1 S15 Proteus mirabilis HI4320	1 S15 Photorhabdus luminescens subsp. laumondii TTO1	Ribosome biogenesis
RF00168	RNA	Lysine	1 Lysine Escherichia coli str. K-12 substr. MG1655			1 Lysine Klebsiella pneumoniae subsp. pneumoniae MGH 78578		1 Lysine Erwinia amylovora ATCC 49946		1 Lysine Serratia proteamaculans 568	1 Lysine Erwinia carotovora subsp. atroseptica SCRI1043				Lysine biosynthesis
RF00174	RNA	Cobalamin	1 Cobalamin Escherichia coli str. K-12 substr. MG1655	2 Cobalamin Salmonella typhimurium LT2	3 Cobalamin Citrobacter koseri ATCC BAA-895	2 Cobalamin Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Cobalamin Enterobacter sp. 638		1 Cobalamin Yersinia pestis KIM	1 Cobalamin Serratia proteamaculans 568	1 Cobalamin Erwinia carotovora subsp. atroseptica SCRI1043	2 Cobalamin Edwardsiella tarda EIB202	1 Cobalamin Proteus mirabilis HI4320	1 Cobalamin Photorhabdus luminescens subsp. laumondii TTO1	Cobalamin biosynthesis
RF00380	RNA	ykoK			1 ykoK Citrobacter koseri ATCC BAA-895	1 ykoK Klebsiella pneumoniae subsp. pneumoniae MGH 78578				1 ykoK Serratia proteamaculans 568			1 ykoK Proteus mirabilis HI4320	1 ykoK Photorhabdus luminescens subsp. laumondii TTO1	Magnesium homeostasis
RF00442	RNA	ykkC-yxkD									1 ykkC-yxkD Erwinia carotovora subsp. atroseptica SCRI1043				Multidrug resistance
RF00504	RNA	Glycine									1 Glycine Erwinia carotovora subsp. atroseptica SCRI1043				Glycine metabolism
RF00506	RNA	Thr_leader	1 Thr_leader Escherichia coli str. K-12 substr. MG1655	1 Thr_leader Salmonella typhimurium LT2	1 Thr_leader Citrobacter koseri ATCC BAA-895	1 Thr_leader Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Thr_leader Enterobacter sp. 638	1 Thr_leader Erwinia amylovora ATCC 49946	1 Thr_leader Yersinia pestis KIM	1 Thr_leader Serratia proteamaculans 568	1 Thr_leader Erwinia carotovora subsp. atroseptica SCRI1043	1 Thr_leader Edwardsiella tarda EIB202	1 Thr_leader Proteus mirabilis HI4320	1 Thr_leader Photorhabdus luminescens subsp. laumondii TTO1	Threonine biosynthesis
RF00512	RNA	Leu_leader	1 Leu_leader Escherichia coli str. K-12 substr. MG1655	1 Leu_leader Salmonella typhimurium LT2	1 Leu_leader Citrobacter koseri ATCC BAA-895	1 Leu_leader Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Leu_leader Enterobacter sp. 638	1 Leu_leader Erwinia amylovora ATCC 49946	1 Leu_leader Yersinia pestis KIM	1 Leu_leader Serratia proteamaculans 568	1 Leu_leader Erwinia carotovora subsp. atroseptica SCRI1043	1 Leu_leader Edwardsiella tarda EIB202	1 Leu_leader Proteus mirabilis HI4320	1 Leu_leader Photorhabdus luminescens subsp. laumondii TTO1	Branched-chain amino acid biosynthesis
RF00513	RNA	Trp_leader	1 Trp_leader Escherichia coli str. K-12 substr. MG1655	1 Trp_leader Salmonella typhimurium LT2	1 Trp_leader Citrobacter koseri ATCC BAA-895	1 Trp_leader Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Trp_leader Enterobacter sp. 638	1 Trp_leader Erwinia amylovora ATCC 49946	1 Trp_leader Yersinia pestis KIM	1 Trp_leader Serratia proteamaculans 568	1 Trp_leader Erwinia carotovora subsp. atroseptica SCRI1043	1 Trp_leader Edwardsiella tarda EIB202	1 Trp_leader Proteus mirabilis HI4320	1 Trp_leader Photorhabdus luminescens subsp. laumondii TTO1	Tryptophan biosynthesis
RF00514	RNA	His_leader	1 His_leader Escherichia coli str. K-12 substr. MG1655	1 His_leader Salmonella typhimurium LT2	1 His_leader Citrobacter koseri ATCC BAA-895	1 His_leader Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 His_leader Enterobacter sp. 638	1 His_leader Erwinia amylovora ATCC 49946	1 His_leader Yersinia pestis KIM	1 His_leader Serratia proteamaculans 568	1 His_leader Erwinia carotovora subsp. atroseptica SCRI1043	1 His_leader Edwardsiella tarda EIB202	1 His_leader Proteus mirabilis HI4320	1 His_leader Photorhabdus luminescens subsp. laumondii TTO1	Histidine biosynthesis
RF00558	RNA	L20_leader													Ribosome biogenesis
RF01051	RNA	GEMM_RNA_motif			1 GEMM_RNA_motif Citrobacter koseri ATCC BAA-895										Second messenger response
RF01055	RNA	MOCO_RNA_motif	1 MOCO_RNA_motif Escherichia coli str. K-12 substr. MG1655	1 MOCO_RNA_motif Salmonella typhimurium LT2	1 MOCO_RNA_motif Citrobacter koseri ATCC BAA-895	1 MOCO_RNA_motif Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 MOCO_RNA_motif Enterobacter sp. 638	1 MOCO_RNA_motif Erwinia amylovora ATCC 49946	1 MOCO_RNA_motif Yersinia pestis KIM	1 MOCO_RNA_motif Serratia proteamaculans 568	1 MOCO_RNA_motif Erwinia carotovora subsp. atroseptica SCRI1043	1 MOCO_RNA_motif Edwardsiella tarda EIB202	1 MOCO_RNA_motif Proteus mirabilis HI4320	1 MOCO_RNA_motif Photorhabdus luminescens subsp. laumondii TTO1	Molybdopterin biosynthesis
RF01056	RNA	Mg_sensor	1 Mg_sensor Escherichia coli str. K-12 substr. MG1655	1 Mg_sensor Salmonella typhimurium LT2	1 Mg_sensor Citrobacter koseri ATCC BAA-895	1 Mg_sensor Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 Mg_sensor Enterobacter sp. 638								Magnesium homeostasis
RF01068	RNA	mini-ykkC	1 mini-ykkC Escherichia coli str. K-12 substr. MG1655	1 mini-ykkC Salmonella typhimurium LT2	1 mini-ykkC Citrobacter koseri ATCC BAA-895	1 mini-ykkC Klebsiella pneumoniae subsp. pneumoniae MGH 78578	1 mini-ykkC Enterobacter sp. 638			1 mini-ykkC Serratia proteamaculans 568	1 mini-ykkC Erwinia carotovora subsp. atroseptica SCRI1043	1 mini-ykkC Edwardsiella tarda EIB202	1 mini-ykkC Proteus mirabilis HI4320	1 mini-ykkC Photorhabdus luminescens subsp. laumondii TTO1	Multidrug resistance

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes -- version 3.2 --

Collection of regulogs in Enterobacteriales taxonomic group

Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --