Collection of regulogs in Rhizobiales taxonomic group

General statistics
Genomes	15
TF regulogs	97
TF regulons	539
TF binding sites	2353
RNA regulogs	12
RNA regulons	124
RNA sites	221

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
Agrobacterium tumefaciens str. C58 (Cereon)	54	262	9	18	63	280
Azorhizobium caulinodans ORS 571	26	91	8	13	34	104
Bartonella quintana str. Toulouse	8	13	2	3	10	16
Bradyrhizobium japonicum USDA 110	34	166	6	12	40	178
Bradyrhizobium sp. BTAi1	35	147	8	12	43	159
Brucella melitensis 16M	27	111	9	14	36	125
Mesorhizobium loti MAFF303099	42	168	10	21	52	189
Mesorhizobium sp. BNC1	28	115	10	17	38	132
Nitrobacter winogradskyi Nb-255	13	34	7	11	20	45
Rhizobium etli CFN 42	57	252	9	16	66	268
Rhizobium leguminosarum bv. viciae 3841	55	258	10	19	65	277
Rhizobium sp. NGR234	57	253	10	17	67	270
Rhodopseudomonas palustris CGA009	22	124	9	20	31	144
Sinorhizobium meliloti 1021	56	252	8	15	64	267
Xanthobacter autotrophicus Py2	25	107	9	13	34	120

Genomic distribution of regulons
Family	Type	Regulator																Function
ArsR	TF	SahR	5 SahR Sinorhizobium meliloti 1021	5 SahR Rhizobium sp. NGR234	4 SahR Rhizobium leguminosarum bv. viciae 3841	4 SahR Rhizobium etli CFN 42	4 SahR Agrobacterium tumefaciens str. C58 (Cereon)	3 SahR Mesorhizobium sp. BNC1	4 SahR Mesorhizobium loti MAFF303099	3 SahR Brucella melitensis 16M						2 SahR Azorhizobium caulinodans ORS 571	2 SahR Xanthobacter autotrophicus Py2	Methionine metabolism
CRP	TF	FnrN/FixK/AadR	10 FnrN/FixK/AadR Sinorhizobium meliloti 1021	11 FnrN/FixK/AadR Rhizobium sp. NGR234	14 FnrN/FixK/AadR Rhizobium leguminosarum bv. viciae 3841	13 FnrN/FixK/AadR Rhizobium etli CFN 42	16 FnrN/FixK/AadR Agrobacterium tumefaciens str. C58 (Cereon)	7 FnrN/FixK/AadR Mesorhizobium sp. BNC1	6 FnrN/FixK/AadR Mesorhizobium loti MAFF303099	6 FnrN/FixK/AadR Brucella melitensis 16M		28 FnrN/FixK/AadR Rhodopseudomonas palustris CGA009	21 FnrN/FixK/AadR Bradyrhizobium japonicum USDA 110	20 FnrN/FixK/AadR Bradyrhizobium sp. BTAi1	3 FnrN/FixK/AadR Nitrobacter winogradskyi Nb-255	5 FnrN/FixK/AadR Azorhizobium caulinodans ORS 571	5 FnrN/FixK/AadR Xanthobacter autotrophicus Py2	Oxidative stress response; Nitrogen fixation
	TF	NnrR	12 NnrR Sinorhizobium meliloti 1021	9 NnrR Rhizobium sp. NGR234		5 NnrR Rhizobium etli CFN 42	8 NnrR Agrobacterium tumefaciens str. C58 (Cereon)	12 NnrR Mesorhizobium sp. BNC1		5 NnrR Brucella melitensis 16M		11 NnrR Rhodopseudomonas palustris CGA009	13 NnrR Bradyrhizobium japonicum USDA 110	10 NnrR Bradyrhizobium sp. BTAi1				Denitrification
DeoR	TF	RhaR	2 RhaR Sinorhizobium meliloti 1021	2 RhaR Rhizobium sp. NGR234	2 RhaR Rhizobium leguminosarum bv. viciae 3841	2 RhaR Rhizobium etli CFN 42	2 RhaR Agrobacterium tumefaciens str. C58 (Cereon)		2 RhaR Mesorhizobium loti MAFF303099									Rhamnose utilization
DtxR	TF	MntR		2 MntR Rhizobium sp. NGR234				2 MntR Mesorhizobium sp. BNC1	2 MntR Mesorhizobium loti MAFF303099					2 MntR Bradyrhizobium sp. BTAi1				Manganese homeostasis
FUR	TF	Irr	10 Irr Sinorhizobium meliloti 1021	11 Irr Rhizobium sp. NGR234	9 Irr Rhizobium leguminosarum bv. viciae 3841	7 Irr Rhizobium etli CFN 42	12 Irr Agrobacterium tumefaciens str. C58 (Cereon)	4 Irr Mesorhizobium sp. BNC1	8 Irr Mesorhizobium loti MAFF303099	4 Irr Brucella melitensis 16M	3 Irr Bartonella quintana str. Toulouse	9 Irr Rhodopseudomonas palustris CGA009	11 Irr Bradyrhizobium japonicum USDA 110	5 Irr Bradyrhizobium sp. BTAi1	3 Irr Nitrobacter winogradskyi Nb-255	9 Irr Azorhizobium caulinodans ORS 571	9 Irr Xanthobacter autotrophicus Py2	Iron homeostasis
	TF	Mur	1 Mur Sinorhizobium meliloti 1021	1 Mur Rhizobium sp. NGR234	2 Mur Rhizobium leguminosarum bv. viciae 3841	1 Mur Rhizobium etli CFN 42	2 Mur Agrobacterium tumefaciens str. C58 (Cereon)	2 Mur Mesorhizobium sp. BNC1		2 Mur Brucella melitensis 16M	1 Mur Bartonella quintana str. Toulouse	2 Mur Rhodopseudomonas palustris CGA009	3 Mur Bradyrhizobium japonicum USDA 110	3 Mur Bradyrhizobium sp. BTAi1	3 Mur Nitrobacter winogradskyi Nb-255	1 Mur Azorhizobium caulinodans ORS 571	1 Mur Xanthobacter autotrophicus Py2	Manganese homeostasis
	TF	Zur	3 Zur Sinorhizobium meliloti 1021	2 Zur Rhizobium sp. NGR234	5 Zur Rhizobium leguminosarum bv. viciae 3841	6 Zur Rhizobium etli CFN 42	6 Zur Agrobacterium tumefaciens str. C58 (Cereon)	2 Zur Mesorhizobium sp. BNC1	1 Zur Mesorhizobium loti MAFF303099	2 Zur Brucella melitensis 16M	1 Zur Bartonella quintana str. Toulouse	3 Zur Rhodopseudomonas palustris CGA009	2 Zur Bradyrhizobium japonicum USDA 110	4 Zur Bradyrhizobium sp. BTAi1	2 Zur Nitrobacter winogradskyi Nb-255			Zinc homeostasis
Fis	TF	NifA	4 NifA Sinorhizobium meliloti 1021	10 NifA Rhizobium sp. NGR234	2 NifA Rhizobium leguminosarum bv. viciae 3841	8 NifA Rhizobium etli CFN 42			10 NifA Mesorhizobium loti MAFF303099			9 NifA Rhodopseudomonas palustris CGA009	13 NifA Bradyrhizobium japonicum USDA 110	15 NifA Bradyrhizobium sp. BTAi1	1 NifA Nitrobacter winogradskyi Nb-255	12 NifA Azorhizobium caulinodans ORS 571	11 NifA Xanthobacter autotrophicus Py2	Nitrogen fixation
	TF	NtrC	4 NtrC Sinorhizobium meliloti 1021	7 NtrC Rhizobium sp. NGR234	5 NtrC Rhizobium leguminosarum bv. viciae 3841	6 NtrC Rhizobium etli CFN 42	3 NtrC Agrobacterium tumefaciens str. C58 (Cereon)	2 NtrC Mesorhizobium sp. BNC1	2 NtrC Mesorhizobium loti MAFF303099	3 NtrC Brucella melitensis 16M		6 NtrC Rhodopseudomonas palustris CGA009	6 NtrC Bradyrhizobium japonicum USDA 110	8 NtrC Bradyrhizobium sp. BTAi1	2 NtrC Nitrobacter winogradskyi Nb-255	6 NtrC Azorhizobium caulinodans ORS 571	8 NtrC Xanthobacter autotrophicus Py2	Nitrogen assimilation
GntR/MocR	TF	BBta_7471												1 BBta_7471 Bradyrhizobium sp. BTAi1
	TF	Blr6977											1 Blr6977 Bradyrhizobium japonicum USDA 110
	TF	EutR	3 EutR Sinorhizobium meliloti 1021	4 EutR Rhizobium sp. NGR234	3 EutR Rhizobium leguminosarum bv. viciae 3841	3 EutR Rhizobium etli CFN 42	2 EutR Agrobacterium tumefaciens str. C58 (Cereon)		3 EutR Mesorhizobium loti MAFF303099									Ectoine utilization
	TF	Mll0059	3 Mll0059 Sinorhizobium meliloti 1021	2 Mll0059 Rhizobium sp. NGR234	2 Mll0059 Rhizobium leguminosarum bv. viciae 3841	3 Mll0059 Rhizobium etli CFN 42	2 Mll0059 Agrobacterium tumefaciens str. C58 (Cereon)		2 Mll0059 Mesorhizobium loti MAFF303099
	TF	Mll2434							1 Mll2434 Mesorhizobium loti MAFF303099				1 Mll2434 Bradyrhizobium japonicum USDA 110
	TF	OapR														1 OapR Azorhizobium caulinodans ORS 571		Amino acid metabolism
	TF	PdxQ							2 PdxQ Mesorhizobium loti MAFF303099									Pyridoxine/pyridoxal homeostasis
	TF	PdxQ2					2 PdxQ2 Agrobacterium tumefaciens str. C58 (Cereon)											Metabolite transport; Pyridoxine/pyridoxal homeostasis
	TF	PdxQ3											1 PdxQ3 Bradyrhizobium japonicum USDA 110	1 PdxQ3 Bradyrhizobium sp. BTAi1		1 PdxQ3 Azorhizobium caulinodans ORS 571		Pyridoxine/pyridoxal homeostasis
	TF	PdxR						1 PdxR Mesorhizobium sp. BNC1				2 PdxR Rhodopseudomonas palustris CGA009						Pyridoxine/pyridoxal homeostasis
	TF	PdxR2													1 PdxR2 Nitrobacter winogradskyi Nb-255			Pyridoxine/pyridoxal homeostasis
	TF	PdxW							1 PdxW Mesorhizobium loti MAFF303099				1 PdxW Bradyrhizobium japonicum USDA 110	1 PdxW Bradyrhizobium sp. BTAi1		1 PdxW Azorhizobium caulinodans ORS 571		Pyridoxine/pyridoxal homeostasis
	TF	SMb20039	1 SMb20039 Sinorhizobium meliloti 1021	1 SMb20039 Rhizobium sp. NGR234	1 SMb20039 Rhizobium leguminosarum bv. viciae 3841	1 SMb20039 Rhizobium etli CFN 42	1 SMb20039 Agrobacterium tumefaciens str. C58 (Cereon)	1 SMb20039 Mesorhizobium sp. BNC1	1 SMb20039 Mesorhizobium loti MAFF303099	1 SMb20039 Brucella melitensis 16M			1 SMb20039 Bradyrhizobium japonicum USDA 110	1 SMb20039 Bradyrhizobium sp. BTAi1		1 SMb20039 Azorhizobium caulinodans ORS 571
	TF	TauR	1 TauR Sinorhizobium meliloti 1021															Taurine utilization
	TF	TauR2										3 TauR2 Rhodopseudomonas palustris CGA009
	TF	YrdX			2 YrdX Rhizobium leguminosarum bv. viciae 3841	1 YrdX Rhizobium etli CFN 42										1 YrdX Azorhizobium caulinodans ORS 571
	TF	YrdX2	1 YrdX2 Sinorhizobium meliloti 1021	1 YrdX2 Rhizobium sp. NGR234													3 YrdX2 Xanthobacter autotrophicus Py2
GntR/Others	TF	AnsR				2 AnsR Rhizobium etli CFN 42	2 AnsR Agrobacterium tumefaciens str. C58 (Cereon)											Aspartate utilization; Asparagine degradation
	TF	Atu2740	3 Atu2740 Sinorhizobium meliloti 1021				3 Atu2740 Agrobacterium tumefaciens str. C58 (Cereon)											Sugar utilization
	TF	Atu3908					2 Atu3908 Agrobacterium tumefaciens str. C58 (Cereon)
	TF	BioR		1 BioR Rhizobium sp. NGR234			1 BioR Agrobacterium tumefaciens str. C58 (Cereon)		1 BioR Mesorhizobium loti MAFF303099	3 BioR Brucella melitensis 16M			2 BioR Bradyrhizobium japonicum USDA 110	2 BioR Bradyrhizobium sp. BTAi1		2 BioR Azorhizobium caulinodans ORS 571		Biotin biosynthesis
	TF	Bll4368											5 Bll4368 Bradyrhizobium japonicum USDA 110	3 Bll4368 Bradyrhizobium sp. BTAi1				Glycolate utilization; Lactate utilization
	TF	GlcC	5 GlcC Sinorhizobium meliloti 1021	3 GlcC Rhizobium sp. NGR234			3 GlcC Agrobacterium tumefaciens str. C58 (Cereon)	3 GlcC Mesorhizobium sp. BNC1	3 GlcC Mesorhizobium loti MAFF303099	4 GlcC Brucella melitensis 16M								Glycolate utilization
	TF	HutC	5 HutC Sinorhizobium meliloti 1021	3 HutC Rhizobium sp. NGR234	4 HutC Rhizobium leguminosarum bv. viciae 3841	2 HutC Rhizobium etli CFN 42	5 HutC Agrobacterium tumefaciens str. C58 (Cereon)	3 HutC Mesorhizobium sp. BNC1	5 HutC Mesorhizobium loti MAFF303099	2 HutC Brucella melitensis 16M			2 HutC Bradyrhizobium japonicum USDA 110	2 HutC Bradyrhizobium sp. BTAi1				Histidine utilization
	TF	HypR	5 HypR Sinorhizobium meliloti 1021		2 HypR Rhizobium leguminosarum bv. viciae 3841	2 HypR Rhizobium etli CFN 42	4 HypR Agrobacterium tumefaciens str. C58 (Cereon)	2 HypR Mesorhizobium sp. BNC1		1 HypR Brucella melitensis 16M								Proline and 4-hydrohyproline utilization
	TF	LldR															2 LldR Xanthobacter autotrophicus Py2	Lactate utilization
	TF	MdcY	2 MdcY Sinorhizobium meliloti 1021	2 MdcY Rhizobium sp. NGR234	2 MdcY Rhizobium leguminosarum bv. viciae 3841	2 MdcY Rhizobium etli CFN 42							3 MdcY Bradyrhizobium japonicum USDA 110			2 MdcY Azorhizobium caulinodans ORS 571	2 MdcY Xanthobacter autotrophicus Py2	Malonate metabolism
	TF	NagQ	2 NagQ Sinorhizobium meliloti 1021	2 NagQ Rhizobium sp. NGR234	1 NagQ Rhizobium leguminosarum bv. viciae 3841	1 NagQ Rhizobium etli CFN 42	2 NagQ Agrobacterium tumefaciens str. C58 (Cereon)		2 NagQ Mesorhizobium loti MAFF303099	2 NagQ Brucella melitensis 16M								N-acetylglucosamine utilization
	TF	PhnF	2 PhnF Sinorhizobium meliloti 1021	2 PhnF Rhizobium sp. NGR234	2 PhnF Rhizobium leguminosarum bv. viciae 3841	2 PhnF Rhizobium etli CFN 42	2 PhnF Agrobacterium tumefaciens str. C58 (Cereon)		2 PhnF Mesorhizobium loti MAFF303099	2 PhnF Brucella melitensis 16M		2 PhnF Rhodopseudomonas palustris CGA009	2 PhnF Bradyrhizobium japonicum USDA 110	2 PhnF Bradyrhizobium sp. BTAi1		1 PhnF Azorhizobium caulinodans ORS 571	2 PhnF Xanthobacter autotrophicus Py2	Phosphonate utilization
	TF	RPA0105										2 RPA0105 Rhodopseudomonas palustris CGA009
	TF	UxuR2	1 UxuR2 Sinorhizobium meliloti 1021	1 UxuR2 Rhizobium sp. NGR234	1 UxuR2 Rhizobium leguminosarum bv. viciae 3841	1 UxuR2 Rhizobium etli CFN 42	3 UxuR2 Agrobacterium tumefaciens str. C58 (Cereon)						4 UxuR2 Bradyrhizobium japonicum USDA 110					Galacturonate utilization
	TF	VanR			2 VanR Rhizobium leguminosarum bv. viciae 3841		3 VanR Agrobacterium tumefaciens str. C58 (Cereon)					1 VanR Rhodopseudomonas palustris CGA009	1 VanR Bradyrhizobium japonicum USDA 110	1 VanR Bradyrhizobium sp. BTAi1				Vanillate utilization
HrcA	TF	HrcA	2 HrcA Sinorhizobium meliloti 1021	3 HrcA Rhizobium sp. NGR234	3 HrcA Rhizobium leguminosarum bv. viciae 3841	4 HrcA Rhizobium etli CFN 42	1 HrcA Agrobacterium tumefaciens str. C58 (Cereon)	2 HrcA Mesorhizobium sp. BNC1	5 HrcA Mesorhizobium loti MAFF303099	1 HrcA Brucella melitensis 16M	1 HrcA Bartonella quintana str. Toulouse	2 HrcA Rhodopseudomonas palustris CGA009	4 HrcA Bradyrhizobium japonicum USDA 110	3 HrcA Bradyrhizobium sp. BTAi1	3 HrcA Nitrobacter winogradskyi Nb-255	2 HrcA Azorhizobium caulinodans ORS 571	2 HrcA Xanthobacter autotrophicus Py2	Heat shock response
LacI	TF	AduR	1 AduR Sinorhizobium meliloti 1021		1 AduR Rhizobium leguminosarum bv. viciae 3841	1 AduR Rhizobium etli CFN 42	1 AduR Agrobacterium tumefaciens str. C58 (Cereon)											Adenosine utilization
	TF	AfrR	2 AfrR Sinorhizobium meliloti 1021	2 AfrR Rhizobium sp. NGR234	1 AfrR Rhizobium leguminosarum bv. viciae 3841	1 AfrR Rhizobium etli CFN 42			2 AfrR Mesorhizobium loti MAFF303099	2 AfrR Brucella melitensis 16M								1,5-Anhydro-d-Fructose utilization
	TF	AglR	2 AglR Sinorhizobium meliloti 1021	2 AglR Rhizobium sp. NGR234	3 AglR Rhizobium leguminosarum bv. viciae 3841	2 AglR Rhizobium etli CFN 42	2 AglR Agrobacterium tumefaciens str. C58 (Cereon)	2 AglR Mesorhizobium sp. BNC1	2 AglR Mesorhizobium loti MAFF303099									Alpha-glucosides utilization
	TF	Atu5239					2 Atu5239 Agrobacterium tumefaciens str. C58 (Cereon)						1 Atu5239 Bradyrhizobium japonicum USDA 110
	TF	GntR															3 GntR Xanthobacter autotrophicus Py2	Gluconate utilization
	TF	IdnR		5 IdnR Rhizobium sp. NGR234	5 IdnR Rhizobium leguminosarum bv. viciae 3841	5 IdnR Rhizobium etli CFN 42	4 IdnR Agrobacterium tumefaciens str. C58 (Cereon)							2 IdnR Bradyrhizobium sp. BTAi1		2 IdnR Azorhizobium caulinodans ORS 571	2 IdnR Xanthobacter autotrophicus Py2	Idonate utilization
	TF	IolR				2 IolR Rhizobium etli CFN 42			2 IolR Mesorhizobium loti MAFF303099									Inositol utilization
	TF	KglR	1 KglR Sinorhizobium meliloti 1021													1 KglR Azorhizobium caulinodans ORS 571		Sugar utilization
	TF	Mll1683		1 Mll1683 Rhizobium sp. NGR234	2 Mll1683 Rhizobium leguminosarum bv. viciae 3841	2 Mll1683 Rhizobium etli CFN 42			1 Mll1683 Mesorhizobium loti MAFF303099				3 Mll1683 Bradyrhizobium japonicum USDA 110	3 Mll1683 Bradyrhizobium sp. BTAi1				Sugar utilization
	TF	MocR	2 MocR Sinorhizobium meliloti 1021	2 MocR Rhizobium sp. NGR234	2 MocR Rhizobium leguminosarum bv. viciae 3841	2 MocR Rhizobium etli CFN 42			2 MocR Mesorhizobium loti MAFF303099									Rhizopine catabolism
	TF	NGR_b22600		2 NGR_b22600 Rhizobium sp. NGR234														Sugar utilization
	TF	PckR	11 PckR Sinorhizobium meliloti 1021	10 PckR Rhizobium sp. NGR234	10 PckR Rhizobium leguminosarum bv. viciae 3841	11 PckR Rhizobium etli CFN 42	11 PckR Agrobacterium tumefaciens str. C58 (Cereon)	7 PckR Mesorhizobium sp. BNC1	10 PckR Mesorhizobium loti MAFF303099	9 PckR Brucella melitensis 16M						2 PckR Azorhizobium caulinodans ORS 571	5 PckR Xanthobacter autotrophicus Py2	Central carbohydrate metabolism
	TF	PsiR	2 PsiR Sinorhizobium meliloti 1021	2 PsiR Rhizobium sp. NGR234	2 PsiR Rhizobium leguminosarum bv. viciae 3841		2 PsiR Agrobacterium tumefaciens str. C58 (Cereon)											Psicose utilization
	TF	RL3595			2 RL3595 Rhizobium leguminosarum bv. viciae 3841	2 RL3595 Rhizobium etli CFN 42	2 RL3595 Agrobacterium tumefaciens str. C58 (Cereon)									2 RL3595 Azorhizobium caulinodans ORS 571		Sugar utilization
	TF	RL4253		2 RL4253 Rhizobium sp. NGR234	2 RL4253 Rhizobium leguminosarum bv. viciae 3841	2 RL4253 Rhizobium etli CFN 42												Sugar utilization
	TF	RbsR2			1 RbsR2 Rhizobium leguminosarum bv. viciae 3841		1 RbsR2 Agrobacterium tumefaciens str. C58 (Cereon)											Ribose utilization
	TF	RhiR		2 RhiR Rhizobium sp. NGR234	2 RhiR Rhizobium leguminosarum bv. viciae 3841	2 RhiR Rhizobium etli CFN 42	2 RhiR Agrobacterium tumefaciens str. C58 (Cereon)											Rhamnogalacturonides utilization
	TF	SMb20014	1 SMb20014 Sinorhizobium meliloti 1021	1 SMb20014 Rhizobium sp. NGR234			1 SMb20014 Agrobacterium tumefaciens str. C58 (Cereon)	1 SMb20014 Mesorhizobium sp. BNC1										Sugar utilization
	TF	SMb20537	2 SMb20537 Sinorhizobium meliloti 1021	2 SMb20537 Rhizobium sp. NGR234	2 SMb20537 Rhizobium leguminosarum bv. viciae 3841	2 SMb20537 Rhizobium etli CFN 42	2 SMb20537 Agrobacterium tumefaciens str. C58 (Cereon)											Sugar utilization
	TF	SMb20667	2 SMb20667 Sinorhizobium meliloti 1021	2 SMb20667 Rhizobium sp. NGR234	2 SMb20667 Rhizobium leguminosarum bv. viciae 3841	2 SMb20667 Rhizobium etli CFN 42										2 SMb20667 Azorhizobium caulinodans ORS 571	2 SMb20667 Xanthobacter autotrophicus Py2	Sugar utilization
	TF	SMb20717	2 SMb20717 Sinorhizobium meliloti 1021	2 SMb20717 Rhizobium sp. NGR234	2 SMb20717 Rhizobium leguminosarum bv. viciae 3841	2 SMb20717 Rhizobium etli CFN 42												Sugar utilization
	TF	SMb21598	2 SMb21598 Sinorhizobium meliloti 1021	2 SMb21598 Rhizobium sp. NGR234	2 SMb21598 Rhizobium leguminosarum bv. viciae 3841	2 SMb21598 Rhizobium etli CFN 42	2 SMb21598 Agrobacterium tumefaciens str. C58 (Cereon)		2 SMb21598 Mesorhizobium loti MAFF303099									Sugar utilization
	TF	SMb21706	1 SMb21706 Sinorhizobium meliloti 1021	1 SMb21706 Rhizobium sp. NGR234	3 SMb21706 Rhizobium leguminosarum bv. viciae 3841	1 SMb21706 Rhizobium etli CFN 42	1 SMb21706 Agrobacterium tumefaciens str. C58 (Cereon)		1 SMb21706 Mesorhizobium loti MAFF303099									Sugar utilization
	TF	SMc04260	2 SMc04260 Sinorhizobium meliloti 1021	2 SMc04260 Rhizobium sp. NGR234	3 SMc04260 Rhizobium leguminosarum bv. viciae 3841	2 SMc04260 Rhizobium etli CFN 42	4 SMc04260 Agrobacterium tumefaciens str. C58 (Cereon)		2 SMc04260 Mesorhizobium loti MAFF303099									Sugar utilization
	TF	SmoR	1 SmoR Sinorhizobium meliloti 1021			1 SmoR Rhizobium etli CFN 42	2 SmoR Agrobacterium tumefaciens str. C58 (Cereon)		2 SmoR Mesorhizobium loti MAFF303099									Sorbitol utilization; Mannitol utilization
	TF	SocR			2 SocR Rhizobium leguminosarum bv. viciae 3841	2 SocR Rhizobium etli CFN 42	2 SocR Agrobacterium tumefaciens str. C58 (Cereon)											Santhopine utilization
	TF	ThuR	2 ThuR Sinorhizobium meliloti 1021	2 ThuR Rhizobium sp. NGR234		3 ThuR Rhizobium etli CFN 42	2 ThuR Agrobacterium tumefaciens str. C58 (Cereon)			2 ThuR Brucella melitensis 16M								Trehalose utilization
	TF	XylR	1 XylR Sinorhizobium meliloti 1021	1 XylR Rhizobium sp. NGR234	4 XylR Rhizobium leguminosarum bv. viciae 3841	3 XylR Rhizobium etli CFN 42	3 XylR Agrobacterium tumefaciens str. C58 (Cereon)			3 XylR Brucella melitensis 16M			1 XylR Bradyrhizobium japonicum USDA 110	1 XylR Bradyrhizobium sp. BTAi1				Xylose utilization
	TF	blr3394											1 blr3394 Bradyrhizobium japonicum USDA 110	1 blr3394 Bradyrhizobium sp. BTAi1				Sugar utilization
	TF	pRL90265	3 pRL90265 Sinorhizobium meliloti 1021		1 pRL90265 Rhizobium leguminosarum bv. viciae 3841	1 pRL90265 Rhizobium etli CFN 42												Sugar utilization
LexA	TF	LexA	17 LexA Sinorhizobium meliloti 1021	16 LexA Rhizobium sp. NGR234	18 LexA Rhizobium leguminosarum bv. viciae 3841	18 LexA Rhizobium etli CFN 42	19 LexA Agrobacterium tumefaciens str. C58 (Cereon)	15 LexA Mesorhizobium sp. BNC1	14 LexA Mesorhizobium loti MAFF303099	12 LexA Brucella melitensis 16M	1 LexA Bartonella quintana str. Toulouse	12 LexA Rhodopseudomonas palustris CGA009	11 LexA Bradyrhizobium japonicum USDA 110	10 LexA Bradyrhizobium sp. BTAi1	8 LexA Nitrobacter winogradskyi Nb-255	9 LexA Azorhizobium caulinodans ORS 571	10 LexA Xanthobacter autotrophicus Py2	SOS response
LuxR	TF	FixJ	2 FixJ Sinorhizobium meliloti 1021		6 FixJ Rhizobium leguminosarum bv. viciae 3841	2 FixJ Rhizobium etli CFN 42												Oxidative stress response; Nitrogen fixation
	TF	FixJ	4 FixJ Sinorhizobium meliloti 1021	2 FixJ Rhizobium sp. NGR234	1 FixJ Rhizobium leguminosarum bv. viciae 3841			1 FixJ Mesorhizobium sp. BNC1	2 FixJ Mesorhizobium loti MAFF303099			1 FixJ Rhodopseudomonas palustris CGA009	1 FixJ Bradyrhizobium japonicum USDA 110	1 FixJ Bradyrhizobium sp. BTAi1	1 FixJ Nitrobacter winogradskyi Nb-255	2 FixJ Azorhizobium caulinodans ORS 571	1 FixJ Xanthobacter autotrophicus Py2	Oxidative stress response
LysR	TF	Bll2166		2 Bll2166 Rhizobium sp. NGR234									2 Bll2166 Bradyrhizobium japonicum USDA 110	2 Bll2166 Bradyrhizobium sp. BTAi1			2 Bll2166 Xanthobacter autotrophicus Py2
	TF	GulR											5 GulR Bradyrhizobium japonicum USDA 110	5 GulR Bradyrhizobium sp. BTAi1		2 GulR Azorhizobium caulinodans ORS 571		Glucarate utilization; Galactarate utilization
MerR	TF	CadR-PbrR	1 CadR-PbrR Sinorhizobium meliloti 1021	1 CadR-PbrR Rhizobium sp. NGR234	1 CadR-PbrR Rhizobium leguminosarum bv. viciae 3841	1 CadR-PbrR Rhizobium etli CFN 42	2 CadR-PbrR Agrobacterium tumefaciens str. C58 (Cereon)	4 CadR-PbrR Mesorhizobium sp. BNC1	1 CadR-PbrR Mesorhizobium loti MAFF303099	1 CadR-PbrR Brucella melitensis 16M		1 CadR-PbrR Rhodopseudomonas palustris CGA009		1 CadR-PbrR Bradyrhizobium sp. BTAi1	1 CadR-PbrR Nitrobacter winogradskyi Nb-255	1 CadR-PbrR Azorhizobium caulinodans ORS 571	2 CadR-PbrR Xanthobacter autotrophicus Py2	Lead resistance; Cadmium resistance
	TF	CueR	5 CueR Sinorhizobium meliloti 1021	5 CueR Rhizobium sp. NGR234	2 CueR Rhizobium leguminosarum bv. viciae 3841	1 CueR Rhizobium etli CFN 42	2 CueR Agrobacterium tumefaciens str. C58 (Cereon)	3 CueR Mesorhizobium sp. BNC1	1 CueR Mesorhizobium loti MAFF303099	2 CueR Brucella melitensis 16M								Copper resistance
	TF	LiuR	10 LiuR Sinorhizobium meliloti 1021	10 LiuR Rhizobium sp. NGR234	10 LiuR Rhizobium leguminosarum bv. viciae 3841	9 LiuR Rhizobium etli CFN 42	9 LiuR Agrobacterium tumefaciens str. C58 (Cereon)	4 LiuR Mesorhizobium sp. BNC1	6 LiuR Mesorhizobium loti MAFF303099	10 LiuR Brucella melitensis 16M	1 LiuR Bartonella quintana str. Toulouse							Branched-chain amino acid degradation
	TF	MerR	1 MerR Sinorhizobium meliloti 1021	1 MerR Rhizobium sp. NGR234														Mercury resistance
	TF	NmlR											1 NmlR Bradyrhizobium japonicum USDA 110	1 NmlR Bradyrhizobium sp. BTAi1				Carbonyl stress response
	TF	SoxR	4 SoxR Sinorhizobium meliloti 1021	3 SoxR Rhizobium sp. NGR234	4 SoxR Rhizobium leguminosarum bv. viciae 3841	2 SoxR Rhizobium etli CFN 42	4 SoxR Agrobacterium tumefaciens str. C58 (Cereon)		3 SoxR Mesorhizobium loti MAFF303099								2 SoxR Xanthobacter autotrophicus Py2	Superoxide stress response
ModE	TF	ModE	1 ModE Sinorhizobium meliloti 1021	1 ModE Rhizobium sp. NGR234	1 ModE Rhizobium leguminosarum bv. viciae 3841	1 ModE Rhizobium etli CFN 42	1 ModE Agrobacterium tumefaciens str. C58 (Cereon)		1 ModE Mesorhizobium loti MAFF303099					1 ModE Bradyrhizobium sp. BTAi1		1 ModE Azorhizobium caulinodans ORS 571	1 ModE Xanthobacter autotrophicus Py2	Molybdenum homeostasis
	TF	ModE										2 ModE Rhodopseudomonas palustris CGA009						Molybdopterin biosynthesis
NadQ	TF	NadQ	1 NadQ Sinorhizobium meliloti 1021	1 NadQ Rhizobium sp. NGR234	1 NadQ Rhizobium leguminosarum bv. viciae 3841	1 NadQ Rhizobium etli CFN 42	1 NadQ Agrobacterium tumefaciens str. C58 (Cereon)	1 NadQ Mesorhizobium sp. BNC1	2 NadQ Mesorhizobium loti MAFF303099			1 NadQ Rhodopseudomonas palustris CGA009	1 NadQ Bradyrhizobium japonicum USDA 110	1 NadQ Bradyrhizobium sp. BTAi1	1 NadQ Nitrobacter winogradskyi Nb-255		1 NadQ Xanthobacter autotrophicus Py2	NAD biosynthesis
NikR	TF	NikR								2 NikR Brucella melitensis 16M		2 NikR Rhodopseudomonas palustris CGA009	2 NikR Bradyrhizobium japonicum USDA 110	5 NikR Bradyrhizobium sp. BTAi1				Nickel homeostasis
NrdR	TF	NrdR	1 NrdR Sinorhizobium meliloti 1021	1 NrdR Rhizobium sp. NGR234	2 NrdR Rhizobium leguminosarum bv. viciae 3841	2 NrdR Rhizobium etli CFN 42	2 NrdR Agrobacterium tumefaciens str. C58 (Cereon)	2 NrdR Mesorhizobium sp. BNC1	1 NrdR Mesorhizobium loti MAFF303099	2 NrdR Brucella melitensis 16M	1 NrdR Bartonella quintana str. Toulouse	1 NrdR Rhodopseudomonas palustris CGA009	2 NrdR Bradyrhizobium japonicum USDA 110	1 NrdR Bradyrhizobium sp. BTAi1	2 NrdR Nitrobacter winogradskyi Nb-255	1 NrdR Azorhizobium caulinodans ORS 571	1 NrdR Xanthobacter autotrophicus Py2	Deoxyribonucleotide biosynthesis
NrtR	TF	NrtR				2 NrtR Rhizobium etli CFN 42								2 NrtR Bradyrhizobium sp. BTAi1				NAD biosynthesis
ROK	TF	XylR	2 XylR Sinorhizobium meliloti 1021	1 XylR Rhizobium sp. NGR234	2 XylR Rhizobium leguminosarum bv. viciae 3841	2 XylR Rhizobium etli CFN 42	2 XylR Agrobacterium tumefaciens str. C58 (Cereon)	3 XylR Mesorhizobium sp. BNC1	3 XylR Mesorhizobium loti MAFF303099				2 XylR Bradyrhizobium japonicum USDA 110					Xylose utilization
RpiR	TF	EutR	2 EutR Sinorhizobium meliloti 1021	2 EutR Rhizobium sp. NGR234	2 EutR Rhizobium leguminosarum bv. viciae 3841	2 EutR Rhizobium etli CFN 42	2 EutR Agrobacterium tumefaciens str. C58 (Cereon)	2 EutR Mesorhizobium sp. BNC1										Ethanolamine utilization
Rrf2	TF	NsrR															2 NsrR Xanthobacter autotrophicus Py2	Nitrosative stress response
	TF	RirA	23 RirA Sinorhizobium meliloti 1021	12 RirA Rhizobium sp. NGR234	19 RirA Rhizobium leguminosarum bv. viciae 3841	16 RirA Rhizobium etli CFN 42	13 RirA Agrobacterium tumefaciens str. C58 (Cereon)	5 RirA Mesorhizobium sp. BNC1	6 RirA Mesorhizobium loti MAFF303099	8 RirA Brucella melitensis 16M	4 RirA Bartonella quintana str. Toulouse							Iron homeostasis
TetR	TF	PaaR		3 PaaR Rhizobium sp. NGR234								5 PaaR Rhodopseudomonas palustris CGA009					4 PaaR Xanthobacter autotrophicus Py2	Phenylacetic acid degradation
	TF	PsrA										2 PsrA Rhodopseudomonas palustris CGA009	2 PsrA Bradyrhizobium japonicum USDA 110	2 PsrA Bradyrhizobium sp. BTAi1				Fatty acid degradation
	TF	RutR	6 RutR Sinorhizobium meliloti 1021	6 RutR Rhizobium sp. NGR234	5 RutR Rhizobium leguminosarum bv. viciae 3841	5 RutR Rhizobium etli CFN 42	5 RutR Agrobacterium tumefaciens str. C58 (Cereon)	4 RutR Mesorhizobium sp. BNC1	6 RutR Mesorhizobium loti MAFF303099	3 RutR Brucella melitensis 16M				3 RutR Bradyrhizobium sp. BTAi1				Pyrimidine utilization
RF00050	RNA	FMN	1 FMN Sinorhizobium meliloti 1021	1 FMN Rhizobium sp. NGR234	3 FMN Rhizobium leguminosarum bv. viciae 3841	2 FMN Rhizobium etli CFN 42	1 FMN Agrobacterium tumefaciens str. C58 (Cereon)		1 FMN Mesorhizobium loti MAFF303099	1 FMN Brucella melitensis 16M			1 FMN Bradyrhizobium japonicum USDA 110	1 FMN Bradyrhizobium sp. BTAi1				Riboflavin biosynthesis
RF00059	RNA	TPP	3 TPP Sinorhizobium meliloti 1021	3 TPP Rhizobium sp. NGR234	3 TPP Rhizobium leguminosarum bv. viciae 3841	3 TPP Rhizobium etli CFN 42	3 TPP Agrobacterium tumefaciens str. C58 (Cereon)	2 TPP Mesorhizobium sp. BNC1	3 TPP Mesorhizobium loti MAFF303099	2 TPP Brucella melitensis 16M		1 TPP Rhodopseudomonas palustris CGA009	1 TPP Bradyrhizobium japonicum USDA 110	1 TPP Bradyrhizobium sp. BTAi1	1 TPP Nitrobacter winogradskyi Nb-255	2 TPP Azorhizobium caulinodans ORS 571	2 TPP Xanthobacter autotrophicus Py2	Thiamine biosynthesis
RF00080	RNA	yybP-ykoY						1 yybP-ykoY Mesorhizobium sp. BNC1						1 yybP-ykoY Bradyrhizobium sp. BTAi1			1 yybP-ykoY Xanthobacter autotrophicus Py2
RF00174	RNA	Cobalamin	4 Cobalamin Sinorhizobium meliloti 1021	4 Cobalamin Rhizobium sp. NGR234	3 Cobalamin Rhizobium leguminosarum bv. viciae 3841	2 Cobalamin Rhizobium etli CFN 42	6 Cobalamin Agrobacterium tumefaciens str. C58 (Cereon)	3 Cobalamin Mesorhizobium sp. BNC1	6 Cobalamin Mesorhizobium loti MAFF303099	4 Cobalamin Brucella melitensis 16M		9 Cobalamin Rhodopseudomonas palustris CGA009	5 Cobalamin Bradyrhizobium japonicum USDA 110	3 Cobalamin Bradyrhizobium sp. BTAi1	3 Cobalamin Nitrobacter winogradskyi Nb-255	2 Cobalamin Azorhizobium caulinodans ORS 571	3 Cobalamin Xanthobacter autotrophicus Py2	Cobalamin biosynthesis
RF00442	RNA	ykkC-yxkD		1 ykkC-yxkD Rhizobium sp. NGR234	1 ykkC-yxkD Rhizobium leguminosarum bv. viciae 3841	1 ykkC-yxkD Rhizobium etli CFN 42						1 ykkC-yxkD Rhodopseudomonas palustris CGA009		1 ykkC-yxkD Bradyrhizobium sp. BTAi1		1 ykkC-yxkD Azorhizobium caulinodans ORS 571	1 ykkC-yxkD Xanthobacter autotrophicus Py2	Multidrug resistance
RF00504	RNA	Glycine	1 Glycine Sinorhizobium meliloti 1021	1 Glycine Rhizobium sp. NGR234	1 Glycine Rhizobium leguminosarum bv. viciae 3841	1 Glycine Rhizobium etli CFN 42	1 Glycine Agrobacterium tumefaciens str. C58 (Cereon)	2 Glycine Mesorhizobium sp. BNC1	2 Glycine Mesorhizobium loti MAFF303099	1 Glycine Brucella melitensis 16M	1 Glycine Bartonella quintana str. Toulouse	1 Glycine Rhodopseudomonas palustris CGA009	1 Glycine Bradyrhizobium japonicum USDA 110	1 Glycine Bradyrhizobium sp. BTAi1	1 Glycine Nitrobacter winogradskyi Nb-255	2 Glycine Azorhizobium caulinodans ORS 571	1 Glycine Xanthobacter autotrophicus Py2	Glycine metabolism
RF00513	RNA	Trp_leader					1 Trp_leader Agrobacterium tumefaciens str. C58 (Cereon)	1 Trp_leader Mesorhizobium sp. BNC1	1 Trp_leader Mesorhizobium loti MAFF303099	1 Trp_leader Brucella melitensis 16M		1 Trp_leader Rhodopseudomonas palustris CGA009						Tryptophan biosynthesis
RF00517	RNA	serC	1 serC Sinorhizobium meliloti 1021	1 serC Rhizobium sp. NGR234	1 serC Rhizobium leguminosarum bv. viciae 3841	1 serC Rhizobium etli CFN 42	1 serC Agrobacterium tumefaciens str. C58 (Cereon)	1 serC Mesorhizobium sp. BNC1	1 serC Mesorhizobium loti MAFF303099	1 serC Brucella melitensis 16M		1 serC Rhodopseudomonas palustris CGA009	1 serC Bradyrhizobium japonicum USDA 110	1 serC Bradyrhizobium sp. BTAi1	1 serC Nitrobacter winogradskyi Nb-255	1 serC Azorhizobium caulinodans ORS 571	1 serC Xanthobacter autotrophicus Py2	Serine biosynthesis
RF00518	RNA	speF	1 speF Sinorhizobium meliloti 1021	1 speF Rhizobium sp. NGR234	1 speF Rhizobium leguminosarum bv. viciae 3841		1 speF Agrobacterium tumefaciens str. C58 (Cereon)	1 speF Mesorhizobium sp. BNC1	1 speF Mesorhizobium loti MAFF303099	1 speF Brucella melitensis 16M	1 speF Bartonella quintana str. Toulouse	1 speF Rhodopseudomonas palustris CGA009			1 speF Nitrobacter winogradskyi Nb-255	1 speF Azorhizobium caulinodans ORS 571	1 speF Xanthobacter autotrophicus Py2	Ornithine degradation
RF00520	RNA	ybhL	1 ybhL Sinorhizobium meliloti 1021	1 ybhL Rhizobium sp. NGR234	1 ybhL Rhizobium leguminosarum bv. viciae 3841	1 ybhL Rhizobium etli CFN 42	1 ybhL Agrobacterium tumefaciens str. C58 (Cereon)	1 ybhL Mesorhizobium sp. BNC1	1 ybhL Mesorhizobium loti MAFF303099	1 ybhL Brucella melitensis 16M
RF00521	RNA	SAM_alpha	2 SAM_alpha Sinorhizobium meliloti 1021	2 SAM_alpha Rhizobium sp. NGR234	2 SAM_alpha Rhizobium leguminosarum bv. viciae 3841	2 SAM_alpha Rhizobium etli CFN 42	2 SAM_alpha Agrobacterium tumefaciens str. C58 (Cereon)	2 SAM_alpha Mesorhizobium sp. BNC1	2 SAM_alpha Mesorhizobium loti MAFF303099	1 SAM_alpha Brucella melitensis 16M		2 SAM_alpha Rhodopseudomonas palustris CGA009	2 SAM_alpha Bradyrhizobium japonicum USDA 110	2 SAM_alpha Bradyrhizobium sp. BTAi1	2 SAM_alpha Nitrobacter winogradskyi Nb-255	1 SAM_alpha Azorhizobium caulinodans ORS 571	1 SAM_alpha Xanthobacter autotrophicus Py2	Methionine biosynthesis
RF01068	RNA	mini-ykkC		1 mini-ykkC Rhizobium sp. NGR234	2 mini-ykkC Rhizobium leguminosarum bv. viciae 3841	2 mini-ykkC Rhizobium etli CFN 42		1 mini-ykkC Mesorhizobium sp. BNC1	1 mini-ykkC Mesorhizobium loti MAFF303099			2 mini-ykkC Rhodopseudomonas palustris CGA009			1 mini-ykkC Nitrobacter winogradskyi Nb-255	1 mini-ykkC Azorhizobium caulinodans ORS 571	1 mini-ykkC Xanthobacter autotrophicus Py2	Multidrug resistance

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

Collection of regulogs in Rhizobiales taxonomic group

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