Collection of regulogs in Shewanellaceae taxonomic group

General statistics
Genomes	16
TF regulogs	90
TF regulons	911
TF binding sites	8632
RNA regulogs	15
RNA regulons	214
RNA sites	291

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
Shewanella amazonensis SB2B	57	471	12	17	69	488
Shewanella baltica OS155	64	572	14	18	78	590
Shewanella denitrificans OS217	45	317	11	13	56	330
Shewanella frigidimarina NCIMB 400	55	481	11	14	66	495
Shewanella halifaxensis HAW-EB4	51	544	14	22	65	566
Shewanella loihica PV-4	54	510	13	17	67	527
Shewanella oneidensis MR-1	62	535	14	19	76	554
Shewanella pealeana ATCC 700345	52	551	14	21	66	572
Shewanella piezotolerans WP3	52	553	14	17	66	570
Shewanella putrefaciens CN-32	63	591	13	17	76	608
Shewanella sediminis HAW-EB3	53	548	14	21	67	569
Shewanella sp ANA-3	64	615	14	18	78	633
Shewanella sp MR-4	61	621	14	20	75	641
Shewanella sp MR-7	60	617	14	20	74	637
Shewanella sp W3-18-1	62	586	14	18	76	604
Shewanella woodyi ATCC 51908	56	520	14	19	70	539

Genomic distribution of regulons
Family	Type	Regulator																	Function
ArgR	TF	ArgR	22 ArgR Shewanella oneidensis MR-1	21 ArgR Shewanella putrefaciens CN-32	21 ArgR Shewanella sp W3-18-1	24 ArgR Shewanella sp ANA-3	21 ArgR Shewanella sp MR-4	24 ArgR Shewanella sp MR-7	21 ArgR Shewanella baltica OS155	13 ArgR Shewanella denitrificans OS217	16 ArgR Shewanella frigidimarina NCIMB 400	18 ArgR Shewanella amazonensis SB2B	17 ArgR Shewanella loihica PV-4	19 ArgR Shewanella pealeana ATCC 700345	17 ArgR Shewanella halifaxensis HAW-EB4	17 ArgR Shewanella piezotolerans WP3	17 ArgR Shewanella sediminis HAW-EB3	19 ArgR Shewanella woodyi ATCC 51908	Arginine degradation; Arginine biosynthesis
BirA	TF	BirA	2 BirA Shewanella oneidensis MR-1	2 BirA Shewanella putrefaciens CN-32	2 BirA Shewanella sp W3-18-1	2 BirA Shewanella sp ANA-3	2 BirA Shewanella sp MR-4	2 BirA Shewanella sp MR-7	2 BirA Shewanella baltica OS155	2 BirA Shewanella denitrificans OS217	2 BirA Shewanella frigidimarina NCIMB 400	2 BirA Shewanella amazonensis SB2B	2 BirA Shewanella loihica PV-4	2 BirA Shewanella pealeana ATCC 700345	2 BirA Shewanella halifaxensis HAW-EB4	2 BirA Shewanella piezotolerans WP3	2 BirA Shewanella sediminis HAW-EB3	2 BirA Shewanella woodyi ATCC 51908	Biotin biosynthesis
CRP	TF	Crp	150 Crp Shewanella oneidensis MR-1	165 Crp Shewanella putrefaciens CN-32	164 Crp Shewanella sp W3-18-1	178 Crp Shewanella sp ANA-3	181 Crp Shewanella sp MR-4	179 Crp Shewanella sp MR-7	153 Crp Shewanella baltica OS155	55 Crp Shewanella denitrificans OS217	120 Crp Shewanella frigidimarina NCIMB 400	106 Crp Shewanella amazonensis SB2B	126 Crp Shewanella loihica PV-4	148 Crp Shewanella pealeana ATCC 700345	162 Crp Shewanella halifaxensis HAW-EB4	136 Crp Shewanella piezotolerans WP3	144 Crp Shewanella sediminis HAW-EB3	130 Crp Shewanella woodyi ATCC 51908	Carbon catabolism
	TF	DeoR	1 DeoR Shewanella oneidensis MR-1	1 DeoR Shewanella putrefaciens CN-32	1 DeoR Shewanella sp W3-18-1	1 DeoR Shewanella sp ANA-3								1 DeoR Shewanella pealeana ATCC 700345	1 DeoR Shewanella halifaxensis HAW-EB4	1 DeoR Shewanella piezotolerans WP3	1 DeoR Shewanella sediminis HAW-EB3	1 DeoR Shewanella woodyi ATCC 51908	Nucleoside utilization
	TF	Dnr								2 Dnr Shewanella denitrificans OS217		1 Dnr Shewanella amazonensis SB2B	2 Dnr Shewanella loihica PV-4						Denitrification
	TF	Fnr	26 Fnr Shewanella oneidensis MR-1	28 Fnr Shewanella putrefaciens CN-32	27 Fnr Shewanella sp W3-18-1	30 Fnr Shewanella sp ANA-3	33 Fnr Shewanella sp MR-4	33 Fnr Shewanella sp MR-7	31 Fnr Shewanella baltica OS155	12 Fnr Shewanella denitrificans OS217	24 Fnr Shewanella frigidimarina NCIMB 400	28 Fnr Shewanella amazonensis SB2B	32 Fnr Shewanella loihica PV-4	34 Fnr Shewanella pealeana ATCC 700345	36 Fnr Shewanella halifaxensis HAW-EB4	31 Fnr Shewanella piezotolerans WP3	38 Fnr Shewanella sediminis HAW-EB3	28 Fnr Shewanella woodyi ATCC 51908	Anaerobic metabolism
	TF	PnuR	1 PnuR Shewanella oneidensis MR-1	1 PnuR Shewanella putrefaciens CN-32	1 PnuR Shewanella sp W3-18-1				1 PnuR Shewanella baltica OS155										NAD biosynthesis
DeoR	TF	AgaR				2 AgaR Shewanella sp ANA-3	2 AgaR Shewanella sp MR-4	2 AgaR Shewanella sp MR-7				2 AgaR Shewanella amazonensis SB2B							N-acetylgalactosamine utilization
	TF	GlmR	1 GlmR Shewanella oneidensis MR-1	1 GlmR Shewanella putrefaciens CN-32	1 GlmR Shewanella sp W3-18-1	1 GlmR Shewanella sp ANA-3	1 GlmR Shewanella sp MR-4	1 GlmR Shewanella sp MR-7	1 GlmR Shewanella baltica OS155	1 GlmR Shewanella denitrificans OS217	1 GlmR Shewanella frigidimarina NCIMB 400	1 GlmR Shewanella amazonensis SB2B	1 GlmR Shewanella loihica PV-4	1 GlmR Shewanella pealeana ATCC 700345	1 GlmR Shewanella halifaxensis HAW-EB4	1 GlmR Shewanella piezotolerans WP3	1 GlmR Shewanella sediminis HAW-EB3	1 GlmR Shewanella woodyi ATCC 51908	Lipopolysaccharide biosynthesis
FUR	TF	Fur	32 Fur Shewanella oneidensis MR-1	39 Fur Shewanella putrefaciens CN-32	37 Fur Shewanella sp W3-18-1	36 Fur Shewanella sp ANA-3	35 Fur Shewanella sp MR-4	35 Fur Shewanella sp MR-7	36 Fur Shewanella baltica OS155	22 Fur Shewanella denitrificans OS217	24 Fur Shewanella frigidimarina NCIMB 400	24 Fur Shewanella amazonensis SB2B	21 Fur Shewanella loihica PV-4	26 Fur Shewanella pealeana ATCC 700345	24 Fur Shewanella halifaxensis HAW-EB4	33 Fur Shewanella piezotolerans WP3	23 Fur Shewanella sediminis HAW-EB3	29 Fur Shewanella woodyi ATCC 51908	Iron homeostasis
Fis	TF	NorR		2 NorR Shewanella putrefaciens CN-32	2 NorR Shewanella sp W3-18-1	2 NorR Shewanella sp ANA-3	2 NorR Shewanella sp MR-4	2 NorR Shewanella sp MR-7			3 NorR Shewanella frigidimarina NCIMB 400	2 NorR Shewanella amazonensis SB2B	2 NorR Shewanella loihica PV-4	2 NorR Shewanella pealeana ATCC 700345	3 NorR Shewanella halifaxensis HAW-EB4	5 NorR Shewanella piezotolerans WP3	3 NorR Shewanella sediminis HAW-EB3	4 NorR Shewanella woodyi ATCC 51908	Nitrosative stress response
	TF	NtrC	4 NtrC Shewanella oneidensis MR-1	4 NtrC Shewanella putrefaciens CN-32	4 NtrC Shewanella sp W3-18-1	4 NtrC Shewanella sp ANA-3	4 NtrC Shewanella sp MR-4	4 NtrC Shewanella sp MR-7	4 NtrC Shewanella baltica OS155	3 NtrC Shewanella denitrificans OS217	3 NtrC Shewanella frigidimarina NCIMB 400	3 NtrC Shewanella amazonensis SB2B	3 NtrC Shewanella loihica PV-4	3 NtrC Shewanella pealeana ATCC 700345	3 NtrC Shewanella halifaxensis HAW-EB4	3 NtrC Shewanella piezotolerans WP3	3 NtrC Shewanella sediminis HAW-EB3	4 NtrC Shewanella woodyi ATCC 51908	Nitrogen assimilation
GntR/MocR	TF	PdxW																1 PdxW Shewanella woodyi ATCC 51908	Pyridoxine/pyridoxal homeostasis
	TF	SO2282	2 SO2282 Shewanella oneidensis MR-1	2 SO2282 Shewanella putrefaciens CN-32	2 SO2282 Shewanella sp W3-18-1	3 SO2282 Shewanella sp ANA-3	3 SO2282 Shewanella sp MR-4	3 SO2282 Shewanella sp MR-7	3 SO2282 Shewanella baltica OS155			3 SO2282 Shewanella amazonensis SB2B		2 SO2282 Shewanella pealeana ATCC 700345	2 SO2282 Shewanella halifaxensis HAW-EB4	2 SO2282 Shewanella piezotolerans WP3		2 SO2282 Shewanella woodyi ATCC 51908	Metabolite transport
	TF	Sbal_1936							1 Sbal_1936 Shewanella baltica OS155										Metabolite transport
	TF	Sbal_3352		2 Sbal_3352 Shewanella putrefaciens CN-32	2 Sbal_3352 Shewanella sp W3-18-1				2 Sbal_3352 Shewanella baltica OS155
	TF	Sbal_4072							2 Sbal_4072 Shewanella baltica OS155
	TF	YdcR		1 YdcR Shewanella putrefaciens CN-32	1 YdcR Shewanella sp W3-18-1	1 YdcR Shewanella sp ANA-3		1 YdcR Shewanella sp MR-7	1 YdcR Shewanella baltica OS155
GntR/Others	TF	AlgR									2 AlgR Shewanella frigidimarina NCIMB 400								Alginate utilization
	TF	AraR		5 AraR Shewanella putrefaciens CN-32	5 AraR Shewanella sp W3-18-1	5 AraR Shewanella sp ANA-3	5 AraR Shewanella sp MR-4	5 AraR Shewanella sp MR-7											Arabinose utilization
	TF	FadR	6 FadR Shewanella oneidensis MR-1	6 FadR Shewanella putrefaciens CN-32	6 FadR Shewanella sp W3-18-1	6 FadR Shewanella sp ANA-3	6 FadR Shewanella sp MR-4	6 FadR Shewanella sp MR-7	6 FadR Shewanella baltica OS155	5 FadR Shewanella denitrificans OS217	5 FadR Shewanella frigidimarina NCIMB 400	6 FadR Shewanella amazonensis SB2B	6 FadR Shewanella loihica PV-4	6 FadR Shewanella pealeana ATCC 700345	6 FadR Shewanella halifaxensis HAW-EB4	6 FadR Shewanella piezotolerans WP3	5 FadR Shewanella sediminis HAW-EB3	6 FadR Shewanella woodyi ATCC 51908	Fatty acid degradation
	TF	HutC	2 HutC Shewanella oneidensis MR-1	2 HutC Shewanella putrefaciens CN-32	2 HutC Shewanella sp W3-18-1	2 HutC Shewanella sp ANA-3	2 HutC Shewanella sp MR-4	2 HutC Shewanella sp MR-7	2 HutC Shewanella baltica OS155	2 HutC Shewanella denitrificans OS217	2 HutC Shewanella frigidimarina NCIMB 400	2 HutC Shewanella amazonensis SB2B	2 HutC Shewanella loihica PV-4	2 HutC Shewanella pealeana ATCC 700345	2 HutC Shewanella halifaxensis HAW-EB4	2 HutC Shewanella piezotolerans WP3	2 HutC Shewanella sediminis HAW-EB3	3 HutC Shewanella woodyi ATCC 51908	Histidine utilization
	TF	HypR	1 HypR Shewanella oneidensis MR-1	1 HypR Shewanella putrefaciens CN-32	1 HypR Shewanella sp W3-18-1	1 HypR Shewanella sp ANA-3	1 HypR Shewanella sp MR-4	1 HypR Shewanella sp MR-7	1 HypR Shewanella baltica OS155	2 HypR Shewanella denitrificans OS217	3 HypR Shewanella frigidimarina NCIMB 400	7 HypR Shewanella amazonensis SB2B	10 HypR Shewanella loihica PV-4	11 HypR Shewanella pealeana ATCC 700345	11 HypR Shewanella halifaxensis HAW-EB4	11 HypR Shewanella piezotolerans WP3	8 HypR Shewanella sediminis HAW-EB3	9 HypR Shewanella woodyi ATCC 51908	Proline and 4-hydrohyproline utilization
	TF	PdhR	4 PdhR Shewanella oneidensis MR-1	5 PdhR Shewanella putrefaciens CN-32	5 PdhR Shewanella sp W3-18-1	5 PdhR Shewanella sp ANA-3	5 PdhR Shewanella sp MR-4	5 PdhR Shewanella sp MR-7	5 PdhR Shewanella baltica OS155	4 PdhR Shewanella denitrificans OS217	5 PdhR Shewanella frigidimarina NCIMB 400	9 PdhR Shewanella amazonensis SB2B	6 PdhR Shewanella loihica PV-4	6 PdhR Shewanella pealeana ATCC 700345	5 PdhR Shewanella halifaxensis HAW-EB4	5 PdhR Shewanella piezotolerans WP3	6 PdhR Shewanella sediminis HAW-EB3	7 PdhR Shewanella woodyi ATCC 51908	Pyruvate metabolism
	TF	PrpR	1 PrpR Shewanella oneidensis MR-1	1 PrpR Shewanella putrefaciens CN-32	1 PrpR Shewanella sp W3-18-1	1 PrpR Shewanella sp ANA-3	1 PrpR Shewanella sp MR-4	1 PrpR Shewanella sp MR-7	1 PrpR Shewanella baltica OS155	1 PrpR Shewanella denitrificans OS217	1 PrpR Shewanella frigidimarina NCIMB 400	1 PrpR Shewanella amazonensis SB2B	2 PrpR Shewanella loihica PV-4	1 PrpR Shewanella pealeana ATCC 700345	1 PrpR Shewanella halifaxensis HAW-EB4	1 PrpR Shewanella piezotolerans WP3	2 PrpR Shewanella sediminis HAW-EB3	1 PrpR Shewanella woodyi ATCC 51908	Methylcitrate utilization
	TF	SO0072	2 SO0072 Shewanella oneidensis MR-1	2 SO0072 Shewanella putrefaciens CN-32	2 SO0072 Shewanella sp W3-18-1	2 SO0072 Shewanella sp ANA-3	2 SO0072 Shewanella sp MR-4	2 SO0072 Shewanella sp MR-7	2 SO0072 Shewanella baltica OS155	2 SO0072 Shewanella denitrificans OS217	2 SO0072 Shewanella frigidimarina NCIMB 400	2 SO0072 Shewanella amazonensis SB2B	2 SO0072 Shewanella loihica PV-4	2 SO0072 Shewanella pealeana ATCC 700345		2 SO0072 Shewanella piezotolerans WP3		2 SO0072 Shewanella woodyi ATCC 51908	Hypothetical ABC transporter
LacI	TF	BglR							2 BglR Shewanella baltica OS155	3 BglR Shewanella denitrificans OS217	3 BglR Shewanella frigidimarina NCIMB 400	4 BglR Shewanella amazonensis SB2B				4 BglR Shewanella piezotolerans WP3		3 BglR Shewanella woodyi ATCC 51908	Beta-glucosides utilization
	TF	GalR																2 GalR Shewanella woodyi ATCC 51908	Galactose utilization
	TF	GntR							2 GntR Shewanella baltica OS155										Gluconate utilization
	TF	MalR	3 MalR Shewanella oneidensis MR-1			4 MalR Shewanella sp ANA-3	4 MalR Shewanella sp MR-4	4 MalR Shewanella sp MR-7	4 MalR Shewanella baltica OS155	5 MalR Shewanella denitrificans OS217	4 MalR Shewanella frigidimarina NCIMB 400	5 MalR Shewanella amazonensis SB2B	4 MalR Shewanella loihica PV-4			5 MalR Shewanella piezotolerans WP3		4 MalR Shewanella woodyi ATCC 51908	Maltodextrin utilization
	TF	ManR1						2 ManR1 Shewanella sp MR-7				2 ManR1 Shewanella amazonensis SB2B							Mannose utilization; Mannosides utilization
	TF	ManR2										3 ManR2 Shewanella amazonensis SB2B							Mannose utilization; Mannosides utilization
	TF	NagR	6 NagR Shewanella oneidensis MR-1	3 NagR Shewanella putrefaciens CN-32	3 NagR Shewanella sp W3-18-1	8 NagR Shewanella sp ANA-3	9 NagR Shewanella sp MR-4	9 NagR Shewanella sp MR-7	7 NagR Shewanella baltica OS155	7 NagR Shewanella denitrificans OS217		4 NagR Shewanella amazonensis SB2B	5 NagR Shewanella loihica PV-4	7 NagR Shewanella pealeana ATCC 700345	6 NagR Shewanella halifaxensis HAW-EB4	10 NagR Shewanella piezotolerans WP3	6 NagR Shewanella sediminis HAW-EB3	11 NagR Shewanella woodyi ATCC 51908	N-acetylglucosamine utilization
	TF	RbsR												1 RbsR Shewanella pealeana ATCC 700345	1 RbsR Shewanella halifaxensis HAW-EB4				Ribose utilization
	TF	ScrR				3 ScrR Shewanella sp ANA-3	3 ScrR Shewanella sp MR-4	3 ScrR Shewanella sp MR-7	3 ScrR Shewanella baltica OS155		4 ScrR Shewanella frigidimarina NCIMB 400								Sucrose utilization
	TF	TreR									3 TreR Shewanella frigidimarina NCIMB 400							4 TreR Shewanella woodyi ATCC 51908	Trehalose utilization
	TF	XltR												2 XltR Shewanella pealeana ATCC 700345	2 XltR Shewanella halifaxensis HAW-EB4				Xylitol utilization
LexA	TF	LexA	10 LexA Shewanella oneidensis MR-1	9 LexA Shewanella putrefaciens CN-32	10 LexA Shewanella sp W3-18-1	10 LexA Shewanella sp ANA-3	9 LexA Shewanella sp MR-4	11 LexA Shewanella sp MR-7	11 LexA Shewanella baltica OS155	10 LexA Shewanella denitrificans OS217	9 LexA Shewanella frigidimarina NCIMB 400	11 LexA Shewanella amazonensis SB2B	10 LexA Shewanella loihica PV-4	10 LexA Shewanella pealeana ATCC 700345	12 LexA Shewanella halifaxensis HAW-EB4	8 LexA Shewanella piezotolerans WP3	9 LexA Shewanella sediminis HAW-EB3	10 LexA Shewanella woodyi ATCC 51908	SOS response
LuxR	TF	NarP	19 NarP Shewanella oneidensis MR-1	16 NarP Shewanella putrefaciens CN-32	16 NarP Shewanella sp W3-18-1	20 NarP Shewanella sp ANA-3	20 NarP Shewanella sp MR-4	20 NarP Shewanella sp MR-7	16 NarP Shewanella baltica OS155		14 NarP Shewanella frigidimarina NCIMB 400	15 NarP Shewanella amazonensis SB2B	15 NarP Shewanella loihica PV-4	12 NarP Shewanella pealeana ATCC 700345	14 NarP Shewanella halifaxensis HAW-EB4	16 NarP Shewanella piezotolerans WP3	14 NarP Shewanella sediminis HAW-EB3	10 NarP Shewanella woodyi ATCC 51908	Nitrate and nitrite respiration
	TF	PhsR	1 PhsR Shewanella oneidensis MR-1	1 PhsR Shewanella putrefaciens CN-32	1 PhsR Shewanella sp W3-18-1	1 PhsR Shewanella sp ANA-3	1 PhsR Shewanella sp MR-4	1 PhsR Shewanella sp MR-7	1 PhsR Shewanella baltica OS155		1 PhsR Shewanella frigidimarina NCIMB 400	1 PhsR Shewanella amazonensis SB2B	1 PhsR Shewanella loihica PV-4	1 PhsR Shewanella pealeana ATCC 700345	1 PhsR Shewanella halifaxensis HAW-EB4	1 PhsR Shewanella piezotolerans WP3	1 PhsR Shewanella sediminis HAW-EB3		Thiosulfate reduction
	TF	TtrR		2 TtrR Shewanella putrefaciens CN-32	2 TtrR Shewanella sp W3-18-1	2 TtrR Shewanella sp ANA-3	2 TtrR Shewanella sp MR-4		2 TtrR Shewanella baltica OS155										Tetrathionate reduction
LysR	TF	GcvA	7 GcvA Shewanella oneidensis MR-1	7 GcvA Shewanella putrefaciens CN-32	7 GcvA Shewanella sp W3-18-1	7 GcvA Shewanella sp ANA-3	7 GcvA Shewanella sp MR-4	7 GcvA Shewanella sp MR-7	7 GcvA Shewanella baltica OS155	4 GcvA Shewanella denitrificans OS217	5 GcvA Shewanella frigidimarina NCIMB 400	6 GcvA Shewanella amazonensis SB2B	5 GcvA Shewanella loihica PV-4	7 GcvA Shewanella pealeana ATCC 700345	7 GcvA Shewanella halifaxensis HAW-EB4	7 GcvA Shewanella piezotolerans WP3	6 GcvA Shewanella sediminis HAW-EB3	6 GcvA Shewanella woodyi ATCC 51908	Glycine metabolism
	TF	HmgQ	2 HmgQ Shewanella oneidensis MR-1	2 HmgQ Shewanella putrefaciens CN-32	2 HmgQ Shewanella sp W3-18-1	2 HmgQ Shewanella sp ANA-3	2 HmgQ Shewanella sp MR-4	2 HmgQ Shewanella sp MR-7	2 HmgQ Shewanella baltica OS155	2 HmgQ Shewanella denitrificans OS217	2 HmgQ Shewanella frigidimarina NCIMB 400	2 HmgQ Shewanella amazonensis SB2B	2 HmgQ Shewanella loihica PV-4	2 HmgQ Shewanella pealeana ATCC 700345	2 HmgQ Shewanella halifaxensis HAW-EB4	2 HmgQ Shewanella piezotolerans WP3	2 HmgQ Shewanella sediminis HAW-EB3	2 HmgQ Shewanella woodyi ATCC 51908	Tyrosine degradation
	TF	IlvY	2 IlvY Shewanella oneidensis MR-1	2 IlvY Shewanella putrefaciens CN-32	2 IlvY Shewanella sp W3-18-1	2 IlvY Shewanella sp ANA-3	2 IlvY Shewanella sp MR-4	2 IlvY Shewanella sp MR-7	2 IlvY Shewanella baltica OS155	2 IlvY Shewanella denitrificans OS217	2 IlvY Shewanella frigidimarina NCIMB 400	2 IlvY Shewanella amazonensis SB2B	2 IlvY Shewanella loihica PV-4	2 IlvY Shewanella pealeana ATCC 700345	2 IlvY Shewanella halifaxensis HAW-EB4	2 IlvY Shewanella piezotolerans WP3	2 IlvY Shewanella sediminis HAW-EB3	2 IlvY Shewanella woodyi ATCC 51908	Branched-chain amino acid biosynthesis
	TF	LldR	1 LldR Shewanella oneidensis MR-1	1 LldR Shewanella putrefaciens CN-32	1 LldR Shewanella sp W3-18-1	1 LldR Shewanella sp ANA-3	1 LldR Shewanella sp MR-4	1 LldR Shewanella sp MR-7	1 LldR Shewanella baltica OS155		1 LldR Shewanella frigidimarina NCIMB 400	1 LldR Shewanella amazonensis SB2B	1 LldR Shewanella loihica PV-4	1 LldR Shewanella pealeana ATCC 700345	1 LldR Shewanella halifaxensis HAW-EB4	1 LldR Shewanella piezotolerans WP3	1 LldR Shewanella sediminis HAW-EB3		Lactate utilization
	TF	MetR	6 MetR Shewanella oneidensis MR-1	6 MetR Shewanella putrefaciens CN-32	6 MetR Shewanella sp W3-18-1	6 MetR Shewanella sp ANA-3	6 MetR Shewanella sp MR-4	6 MetR Shewanella sp MR-7	6 MetR Shewanella baltica OS155	5 MetR Shewanella denitrificans OS217	3 MetR Shewanella frigidimarina NCIMB 400	4 MetR Shewanella amazonensis SB2B	5 MetR Shewanella loihica PV-4	4 MetR Shewanella pealeana ATCC 700345	3 MetR Shewanella halifaxensis HAW-EB4	3 MetR Shewanella piezotolerans WP3	4 MetR Shewanella sediminis HAW-EB3	2 MetR Shewanella woodyi ATCC 51908	Methionine biosynthesis
	TF	NhaR	2 NhaR Shewanella oneidensis MR-1	2 NhaR Shewanella putrefaciens CN-32	2 NhaR Shewanella sp W3-18-1	3 NhaR Shewanella sp ANA-3	3 NhaR Shewanella sp MR-4	3 NhaR Shewanella sp MR-7	2 NhaR Shewanella baltica OS155	1 NhaR Shewanella denitrificans OS217	2 NhaR Shewanella frigidimarina NCIMB 400	1 NhaR Shewanella amazonensis SB2B	1 NhaR Shewanella loihica PV-4	2 NhaR Shewanella pealeana ATCC 700345	2 NhaR Shewanella halifaxensis HAW-EB4	2 NhaR Shewanella piezotolerans WP3	2 NhaR Shewanella sediminis HAW-EB3	1 NhaR Shewanella woodyi ATCC 51908	Osmotic stress response
	TF	PflR		3 PflR Shewanella putrefaciens CN-32	3 PflR Shewanella sp W3-18-1						3 PflR Shewanella frigidimarina NCIMB 400	3 PflR Shewanella amazonensis SB2B	4 PflR Shewanella loihica PV-4	4 PflR Shewanella pealeana ATCC 700345	3 PflR Shewanella halifaxensis HAW-EB4	4 PflR Shewanella piezotolerans WP3	4 PflR Shewanella sediminis HAW-EB3	4 PflR Shewanella woodyi ATCC 51908	Formate metabolism
MerR	TF	CadR-PbrR		4 CadR-PbrR Shewanella putrefaciens CN-32	4 CadR-PbrR Shewanella sp W3-18-1	1 CadR-PbrR Shewanella sp ANA-3					1 CadR-PbrR Shewanella frigidimarina NCIMB 400								Lead resistance; Cadmium resistance
	TF	CueR	1 CueR Shewanella oneidensis MR-1	2 CueR Shewanella putrefaciens CN-32	2 CueR Shewanella sp W3-18-1	2 CueR Shewanella sp ANA-3	2 CueR Shewanella sp MR-4	2 CueR Shewanella sp MR-7	2 CueR Shewanella baltica OS155	1 CueR Shewanella denitrificans OS217		2 CueR Shewanella amazonensis SB2B		2 CueR Shewanella pealeana ATCC 700345	2 CueR Shewanella halifaxensis HAW-EB4	2 CueR Shewanella piezotolerans WP3	2 CueR Shewanella sediminis HAW-EB3	2 CueR Shewanella woodyi ATCC 51908	Copper resistance
	TF	CueR2		1 CueR2 Shewanella putrefaciens CN-32							1 CueR2 Shewanella frigidimarina NCIMB 400		1 CueR2 Shewanella loihica PV-4						Copper resistance
	TF	LiuR	9 LiuR Shewanella oneidensis MR-1	9 LiuR Shewanella putrefaciens CN-32	9 LiuR Shewanella sp W3-18-1	9 LiuR Shewanella sp ANA-3	9 LiuR Shewanella sp MR-4	9 LiuR Shewanella sp MR-7	8 LiuR Shewanella baltica OS155	8 LiuR Shewanella denitrificans OS217	9 LiuR Shewanella frigidimarina NCIMB 400	8 LiuR Shewanella amazonensis SB2B	7 LiuR Shewanella loihica PV-4	8 LiuR Shewanella pealeana ATCC 700345	8 LiuR Shewanella halifaxensis HAW-EB4	8 LiuR Shewanella piezotolerans WP3	8 LiuR Shewanella sediminis HAW-EB3	8 LiuR Shewanella woodyi ATCC 51908	Branched-chain amino acid degradation
	TF	MerR		1 MerR Shewanella putrefaciens CN-32	1 MerR Shewanella sp W3-18-1	2 MerR Shewanella sp ANA-3					1 MerR Shewanella frigidimarina NCIMB 400								Mercury resistance
	TF	NmlR	1 NmlR Shewanella oneidensis MR-1				1 NmlR Shewanella sp MR-4		1 NmlR Shewanella baltica OS155		1 NmlR Shewanella frigidimarina NCIMB 400							1 NmlR Shewanella woodyi ATCC 51908	Carbonyl stress response
	TF	PhrR	2 PhrR Shewanella oneidensis MR-1	2 PhrR Shewanella putrefaciens CN-32	2 PhrR Shewanella sp W3-18-1	2 PhrR Shewanella sp ANA-3	2 PhrR Shewanella sp MR-4	2 PhrR Shewanella sp MR-7	2 PhrR Shewanella baltica OS155										Light-dependent DNA repair
	TF	SoxR								3 SoxR Shewanella denitrificans OS217	2 SoxR Shewanella frigidimarina NCIMB 400	2 SoxR Shewanella amazonensis SB2B	2 SoxR Shewanella loihica PV-4			2 SoxR Shewanella piezotolerans WP3		1 SoxR Shewanella woodyi ATCC 51908	Superoxide stress response
	TF	ZntR	1 ZntR Shewanella oneidensis MR-1	1 ZntR Shewanella putrefaciens CN-32	1 ZntR Shewanella sp W3-18-1	1 ZntR Shewanella sp ANA-3	1 ZntR Shewanella sp MR-4	1 ZntR Shewanella sp MR-7	1 ZntR Shewanella baltica OS155	1 ZntR Shewanella denitrificans OS217	1 ZntR Shewanella frigidimarina NCIMB 400	1 ZntR Shewanella amazonensis SB2B	1 ZntR Shewanella loihica PV-4	1 ZntR Shewanella pealeana ATCC 700345	1 ZntR Shewanella halifaxensis HAW-EB4	1 ZntR Shewanella piezotolerans WP3	1 ZntR Shewanella sediminis HAW-EB3	1 ZntR Shewanella woodyi ATCC 51908	Zinc resistance; Cadmium resistance
MetJ	TF	MetJ	12 MetJ Shewanella oneidensis MR-1	14 MetJ Shewanella putrefaciens CN-32	14 MetJ Shewanella sp W3-18-1	12 MetJ Shewanella sp ANA-3	12 MetJ Shewanella sp MR-4	12 MetJ Shewanella sp MR-7	15 MetJ Shewanella baltica OS155	11 MetJ Shewanella denitrificans OS217	10 MetJ Shewanella frigidimarina NCIMB 400	11 MetJ Shewanella amazonensis SB2B	13 MetJ Shewanella loihica PV-4	12 MetJ Shewanella pealeana ATCC 700345	11 MetJ Shewanella halifaxensis HAW-EB4	11 MetJ Shewanella piezotolerans WP3	13 MetJ Shewanella sediminis HAW-EB3	11 MetJ Shewanella woodyi ATCC 51908	Methionine biosynthesis; Methionine metabolism
ModE	TF	ModE	2 ModE Shewanella oneidensis MR-1			2 ModE Shewanella sp ANA-3	2 ModE Shewanella sp MR-4	2 ModE Shewanella sp MR-7	2 ModE Shewanella baltica OS155										Molybdopterin biosynthesis; Molybdenum homeostasis
NikR	TF	NikR												3 NikR Shewanella pealeana ATCC 700345	3 NikR Shewanella halifaxensis HAW-EB4		2 NikR Shewanella sediminis HAW-EB3		Nickel homeostasis
NrdR	TF	NrdR	2 NrdR Shewanella oneidensis MR-1	2 NrdR Shewanella putrefaciens CN-32	2 NrdR Shewanella sp W3-18-1	2 NrdR Shewanella sp ANA-3	2 NrdR Shewanella sp MR-4	2 NrdR Shewanella sp MR-7	2 NrdR Shewanella baltica OS155	2 NrdR Shewanella denitrificans OS217	2 NrdR Shewanella frigidimarina NCIMB 400	2 NrdR Shewanella amazonensis SB2B	2 NrdR Shewanella loihica PV-4	2 NrdR Shewanella pealeana ATCC 700345	2 NrdR Shewanella halifaxensis HAW-EB4	2 NrdR Shewanella piezotolerans WP3	2 NrdR Shewanella sediminis HAW-EB3	2 NrdR Shewanella woodyi ATCC 51908	Deoxyribonucleotide biosynthesis
NrtR	TF	NrtR	1 NrtR Shewanella oneidensis MR-1	1 NrtR Shewanella putrefaciens CN-32	1 NrtR Shewanella sp W3-18-1														NAD biosynthesis
PadR	TF	SO0734	1 SO0734 Shewanella oneidensis MR-1	1 SO0734 Shewanella putrefaciens CN-32	1 SO0734 Shewanella sp W3-18-1				1 SO0734 Shewanella baltica OS155
RpiR	TF	HexR	16 HexR Shewanella oneidensis MR-1	19 HexR Shewanella putrefaciens CN-32	19 HexR Shewanella sp W3-18-1	18 HexR Shewanella sp ANA-3	17 HexR Shewanella sp MR-4	17 HexR Shewanella sp MR-7	18 HexR Shewanella baltica OS155	12 HexR Shewanella denitrificans OS217	15 HexR Shewanella frigidimarina NCIMB 400	14 HexR Shewanella amazonensis SB2B	17 HexR Shewanella loihica PV-4	17 HexR Shewanella pealeana ATCC 700345	18 HexR Shewanella halifaxensis HAW-EB4	17 HexR Shewanella piezotolerans WP3	17 HexR Shewanella sediminis HAW-EB3	14 HexR Shewanella woodyi ATCC 51908	Central carbohydrate metabolism
Rrf2	TF	IscR	5 IscR Shewanella oneidensis MR-1	5 IscR Shewanella putrefaciens CN-32	5 IscR Shewanella sp W3-18-1	5 IscR Shewanella sp ANA-3	5 IscR Shewanella sp MR-4	5 IscR Shewanella sp MR-7	5 IscR Shewanella baltica OS155	3 IscR Shewanella denitrificans OS217	4 IscR Shewanella frigidimarina NCIMB 400	5 IscR Shewanella amazonensis SB2B	5 IscR Shewanella loihica PV-4	5 IscR Shewanella pealeana ATCC 700345	5 IscR Shewanella halifaxensis HAW-EB4	5 IscR Shewanella piezotolerans WP3	5 IscR Shewanella sediminis HAW-EB3	4 IscR Shewanella woodyi ATCC 51908	Iron-sulfur cluster biogenesis
	TF	NsrR	3 NsrR Shewanella oneidensis MR-1	2 NsrR Shewanella putrefaciens CN-32	2 NsrR Shewanella sp W3-18-1	5 NsrR Shewanella sp ANA-3	4 NsrR Shewanella sp MR-4	4 NsrR Shewanella sp MR-7	4 NsrR Shewanella baltica OS155	1 NsrR Shewanella denitrificans OS217	4 NsrR Shewanella frigidimarina NCIMB 400	3 NsrR Shewanella amazonensis SB2B	2 NsrR Shewanella loihica PV-4	3 NsrR Shewanella pealeana ATCC 700345	1 NsrR Shewanella halifaxensis HAW-EB4	3 NsrR Shewanella piezotolerans WP3	4 NsrR Shewanella sediminis HAW-EB3	3 NsrR Shewanella woodyi ATCC 51908	Nitrosative stress response
SdaR	TF	SdaR	1 SdaR Shewanella oneidensis MR-1	1 SdaR Shewanella putrefaciens CN-32	1 SdaR Shewanella sp W3-18-1	1 SdaR Shewanella sp ANA-3	1 SdaR Shewanella sp MR-4	1 SdaR Shewanella sp MR-7	1 SdaR Shewanella baltica OS155		1 SdaR Shewanella frigidimarina NCIMB 400		1 SdaR Shewanella loihica PV-4	1 SdaR Shewanella pealeana ATCC 700345	1 SdaR Shewanella halifaxensis HAW-EB4	1 SdaR Shewanella piezotolerans WP3	1 SdaR Shewanella sediminis HAW-EB3	1 SdaR Shewanella woodyi ATCC 51908	Glycerate utilization
SorC	TF	MtlR									1 MtlR Shewanella frigidimarina NCIMB 400								Mannitol utilization
TetR	TF	BetI							1 BetI Shewanella baltica OS155	1 BetI Shewanella denitrificans OS217	1 BetI Shewanella frigidimarina NCIMB 400			1 BetI Shewanella pealeana ATCC 700345	1 BetI Shewanella halifaxensis HAW-EB4		2 BetI Shewanella sediminis HAW-EB3	1 BetI Shewanella woodyi ATCC 51908	Osmotic stress response
	TF	CalR	1 CalR Shewanella oneidensis MR-1	1 CalR Shewanella putrefaciens CN-32	1 CalR Shewanella sp W3-18-1	1 CalR Shewanella sp ANA-3	1 CalR Shewanella sp MR-4	1 CalR Shewanella sp MR-7	1 CalR Shewanella baltica OS155	1 CalR Shewanella denitrificans OS217	1 CalR Shewanella frigidimarina NCIMB 400	1 CalR Shewanella amazonensis SB2B	1 CalR Shewanella loihica PV-4	1 CalR Shewanella pealeana ATCC 700345	1 CalR Shewanella halifaxensis HAW-EB4	1 CalR Shewanella piezotolerans WP3	1 CalR Shewanella sediminis HAW-EB3	1 CalR Shewanella woodyi ATCC 51908	Utilization of aromatic compounds
	TF	FabR	7 FabR Shewanella oneidensis MR-1	7 FabR Shewanella putrefaciens CN-32	7 FabR Shewanella sp W3-18-1	7 FabR Shewanella sp ANA-3	7 FabR Shewanella sp MR-4	7 FabR Shewanella sp MR-7	7 FabR Shewanella baltica OS155	6 FabR Shewanella denitrificans OS217	6 FabR Shewanella frigidimarina NCIMB 400	7 FabR Shewanella amazonensis SB2B	8 FabR Shewanella loihica PV-4	9 FabR Shewanella pealeana ATCC 700345	9 FabR Shewanella halifaxensis HAW-EB4	9 FabR Shewanella piezotolerans WP3	7 FabR Shewanella sediminis HAW-EB3	8 FabR Shewanella woodyi ATCC 51908	Fatty acid biosynthesis
	TF	PsrA	16 PsrA Shewanella oneidensis MR-1	17 PsrA Shewanella putrefaciens CN-32	17 PsrA Shewanella sp W3-18-1	16 PsrA Shewanella sp ANA-3	16 PsrA Shewanella sp MR-4	16 PsrA Shewanella sp MR-7	17 PsrA Shewanella baltica OS155	15 PsrA Shewanella denitrificans OS217	16 PsrA Shewanella frigidimarina NCIMB 400	15 PsrA Shewanella amazonensis SB2B	17 PsrA Shewanella loihica PV-4	17 PsrA Shewanella pealeana ATCC 700345	17 PsrA Shewanella halifaxensis HAW-EB4	17 PsrA Shewanella piezotolerans WP3	18 PsrA Shewanella sediminis HAW-EB3	17 PsrA Shewanella woodyi ATCC 51908	Fatty acid degradation
	TF	SO0193	1 SO0193 Shewanella oneidensis MR-1	1 SO0193 Shewanella putrefaciens CN-32	1 SO0193 Shewanella sp W3-18-1	1 SO0193 Shewanella sp ANA-3	1 SO0193 Shewanella sp MR-4	1 SO0193 Shewanella sp MR-7	1 SO0193 Shewanella baltica OS155		1 SO0193 Shewanella frigidimarina NCIMB 400	1 SO0193 Shewanella amazonensis SB2B	1 SO0193 Shewanella loihica PV-4						Fatty acid metabolism
	TF	SO1393	2 SO1393 Shewanella oneidensis MR-1			2 SO1393 Shewanella sp ANA-3	2 SO1393 Shewanella sp MR-4	2 SO1393 Shewanella sp MR-7					2 SO1393 Shewanella loihica PV-4
	TF	SO1415	3 SO1415 Shewanella oneidensis MR-1				3 SO1415 Shewanella sp MR-4						3 SO1415 Shewanella loihica PV-4	3 SO1415 Shewanella pealeana ATCC 700345	3 SO1415 Shewanella halifaxensis HAW-EB4		3 SO1415 Shewanella sediminis HAW-EB3
	TF	SO1578	2 SO1578 Shewanella oneidensis MR-1			2 SO1578 Shewanella sp ANA-3	2 SO1578 Shewanella sp MR-4	2 SO1578 Shewanella sp MR-7	2 SO1578 Shewanella baltica OS155			2 SO1578 Shewanella amazonensis SB2B	2 SO1578 Shewanella loihica PV-4					2 SO1578 Shewanella woodyi ATCC 51908	Glutathione metabolism
	TF	SO1703	1 SO1703 Shewanella oneidensis MR-1	1 SO1703 Shewanella putrefaciens CN-32	1 SO1703 Shewanella sp W3-18-1	1 SO1703 Shewanella sp ANA-3	1 SO1703 Shewanella sp MR-4	1 SO1703 Shewanella sp MR-7	1 SO1703 Shewanella baltica OS155	1 SO1703 Shewanella denitrificans OS217		1 SO1703 Shewanella amazonensis SB2B	1 SO1703 Shewanella loihica PV-4				1 SO1703 Shewanella sediminis HAW-EB3		Multidrug resistance
	TF	SO3277	2 SO3277 Shewanella oneidensis MR-1	2 SO3277 Shewanella putrefaciens CN-32	2 SO3277 Shewanella sp W3-18-1	2 SO3277 Shewanella sp ANA-3	2 SO3277 Shewanella sp MR-4	2 SO3277 Shewanella sp MR-7	2 SO3277 Shewanella baltica OS155	2 SO3277 Shewanella denitrificans OS217	2 SO3277 Shewanella frigidimarina NCIMB 400	2 SO3277 Shewanella amazonensis SB2B	2 SO3277 Shewanella loihica PV-4	2 SO3277 Shewanella pealeana ATCC 700345	2 SO3277 Shewanella halifaxensis HAW-EB4	2 SO3277 Shewanella piezotolerans WP3	2 SO3277 Shewanella sediminis HAW-EB3	2 SO3277 Shewanella woodyi ATCC 51908	Multidrug resistance
	TF	SO3393	2 SO3393 Shewanella oneidensis MR-1	2 SO3393 Shewanella putrefaciens CN-32	2 SO3393 Shewanella sp W3-18-1	2 SO3393 Shewanella sp ANA-3	2 SO3393 Shewanella sp MR-4	2 SO3393 Shewanella sp MR-7	2 SO3393 Shewanella baltica OS155	2 SO3393 Shewanella denitrificans OS217	2 SO3393 Shewanella frigidimarina NCIMB 400	2 SO3393 Shewanella amazonensis SB2B	2 SO3393 Shewanella loihica PV-4			2 SO3393 Shewanella piezotolerans WP3	2 SO3393 Shewanella sediminis HAW-EB3	2 SO3393 Shewanella woodyi ATCC 51908	Drug resistance
	TF	SO3494	2 SO3494 Shewanella oneidensis MR-1	2 SO3494 Shewanella putrefaciens CN-32	2 SO3494 Shewanella sp W3-18-1	2 SO3494 Shewanella sp ANA-3	2 SO3494 Shewanella sp MR-4	2 SO3494 Shewanella sp MR-7	2 SO3494 Shewanella baltica OS155	1 SO3494 Shewanella denitrificans OS217	2 SO3494 Shewanella frigidimarina NCIMB 400								Multidrug resistance
	TF	SO3627	2 SO3627 Shewanella oneidensis MR-1														2 SO3627 Shewanella sediminis HAW-EB3
	TF	SO4326	1 SO4326 Shewanella oneidensis MR-1			1 SO4326 Shewanella sp ANA-3						1 SO4326 Shewanella amazonensis SB2B		1 SO4326 Shewanella pealeana ATCC 700345	1 SO4326 Shewanella halifaxensis HAW-EB4	1 SO4326 Shewanella piezotolerans WP3	1 SO4326 Shewanella sediminis HAW-EB3	1 SO4326 Shewanella woodyi ATCC 51908	Multidrug resistance
	TF	SO4468	2 SO4468 Shewanella oneidensis MR-1	2 SO4468 Shewanella putrefaciens CN-32	2 SO4468 Shewanella sp W3-18-1	2 SO4468 Shewanella sp ANA-3	2 SO4468 Shewanella sp MR-4	2 SO4468 Shewanella sp MR-7	2 SO4468 Shewanella baltica OS155	2 SO4468 Shewanella denitrificans OS217		2 SO4468 Shewanella amazonensis SB2B				2 SO4468 Shewanella piezotolerans WP3	2 SO4468 Shewanella sediminis HAW-EB3
TrpR	TF	TrpR	2 TrpR Shewanella oneidensis MR-1	2 TrpR Shewanella putrefaciens CN-32	2 TrpR Shewanella sp W3-18-1	2 TrpR Shewanella sp ANA-3	2 TrpR Shewanella sp MR-4	2 TrpR Shewanella sp MR-7	2 TrpR Shewanella baltica OS155	2 TrpR Shewanella denitrificans OS217	2 TrpR Shewanella frigidimarina NCIMB 400	1 TrpR Shewanella amazonensis SB2B	1 TrpR Shewanella loihica PV-4	2 TrpR Shewanella pealeana ATCC 700345	2 TrpR Shewanella halifaxensis HAW-EB4	2 TrpR Shewanella piezotolerans WP3	2 TrpR Shewanella sediminis HAW-EB3	2 TrpR Shewanella woodyi ATCC 51908	Aromatic amino acid metabolism
TyrR	TF	TyrR	17 TyrR Shewanella oneidensis MR-1	19 TyrR Shewanella putrefaciens CN-32	19 TyrR Shewanella sp W3-18-1	18 TyrR Shewanella sp ANA-3	18 TyrR Shewanella sp MR-4	18 TyrR Shewanella sp MR-7	19 TyrR Shewanella baltica OS155	18 TyrR Shewanella denitrificans OS217	15 TyrR Shewanella frigidimarina NCIMB 400	18 TyrR Shewanella amazonensis SB2B	15 TyrR Shewanella loihica PV-4	16 TyrR Shewanella pealeana ATCC 700345	14 TyrR Shewanella halifaxensis HAW-EB4	16 TyrR Shewanella piezotolerans WP3	15 TyrR Shewanella sediminis HAW-EB3	17 TyrR Shewanella woodyi ATCC 51908	Amino acid utilization
XRE	TF	SO4705	2 SO4705 Shewanella oneidensis MR-1	2 SO4705 Shewanella putrefaciens CN-32	2 SO4705 Shewanella sp W3-18-1	2 SO4705 Shewanella sp ANA-3	2 SO4705 Shewanella sp MR-4	2 SO4705 Shewanella sp MR-7	2 SO4705 Shewanella baltica OS155	2 SO4705 Shewanella denitrificans OS217	2 SO4705 Shewanella frigidimarina NCIMB 400	2 SO4705 Shewanella amazonensis SB2B	2 SO4705 Shewanella loihica PV-4	2 SO4705 Shewanella pealeana ATCC 700345	2 SO4705 Shewanella halifaxensis HAW-EB4	2 SO4705 Shewanella piezotolerans WP3	2 SO4705 Shewanella sediminis HAW-EB3	2 SO4705 Shewanella woodyi ATCC 51908
[Other]	TF	AzrR	2 AzrR Shewanella oneidensis MR-1	2 AzrR Shewanella putrefaciens CN-32	2 AzrR Shewanella sp W3-18-1	2 AzrR Shewanella sp ANA-3	2 AzrR Shewanella sp MR-4	2 AzrR Shewanella sp MR-7	2 AzrR Shewanella baltica OS155			2 AzrR Shewanella amazonensis SB2B	2 AzrR Shewanella loihica PV-4	2 AzrR Shewanella pealeana ATCC 700345	2 AzrR Shewanella halifaxensis HAW-EB4	2 AzrR Shewanella piezotolerans WP3	2 AzrR Shewanella sediminis HAW-EB3	2 AzrR Shewanella woodyi ATCC 51908	Superoxide stress response
	TF	PUR	4 PUR Shewanella oneidensis MR-1	4 PUR Shewanella putrefaciens CN-32	4 PUR Shewanella sp W3-18-1	4 PUR Shewanella sp ANA-3	4 PUR Shewanella sp MR-4	4 PUR Shewanella sp MR-7	4 PUR Shewanella baltica OS155	2 PUR Shewanella denitrificans OS217	3 PUR Shewanella frigidimarina NCIMB 400	3 PUR Shewanella amazonensis SB2B	4 PUR Shewanella loihica PV-4	4 PUR Shewanella pealeana ATCC 700345	4 PUR Shewanella halifaxensis HAW-EB4	4 PUR Shewanella piezotolerans WP3	4 PUR Shewanella sediminis HAW-EB3	4 PUR Shewanella woodyi ATCC 51908	Purine metabolism
	TF	SO1758	1 SO1758 Shewanella oneidensis MR-1	1 SO1758 Shewanella putrefaciens CN-32	1 SO1758 Shewanella sp W3-18-1	1 SO1758 Shewanella sp ANA-3	1 SO1758 Shewanella sp MR-4	1 SO1758 Shewanella sp MR-7	1 SO1758 Shewanella baltica OS155			1 SO1758 Shewanella amazonensis SB2B	1 SO1758 Shewanella loihica PV-4				1 SO1758 Shewanella sediminis HAW-EB3	1 SO1758 Shewanella woodyi ATCC 51908
	TF	TsrR	2 TsrR Shewanella oneidensis MR-1	2 TsrR Shewanella putrefaciens CN-32	2 TsrR Shewanella sp W3-18-1	2 TsrR Shewanella sp ANA-3	2 TsrR Shewanella sp MR-4	2 TsrR Shewanella sp MR-7					2 TsrR Shewanella loihica PV-4	3 TsrR Shewanella pealeana ATCC 700345	3 TsrR Shewanella halifaxensis HAW-EB4	2 TsrR Shewanella piezotolerans WP3	3 TsrR Shewanella sediminis HAW-EB3	3 TsrR Shewanella woodyi ATCC 51908	Thiosulfate reduction
RF00050	RNA	FMN	1 FMN Shewanella oneidensis MR-1	1 FMN Shewanella putrefaciens CN-32	1 FMN Shewanella sp W3-18-1	1 FMN Shewanella sp ANA-3	1 FMN Shewanella sp MR-4	1 FMN Shewanella sp MR-7	1 FMN Shewanella baltica OS155		1 FMN Shewanella frigidimarina NCIMB 400	1 FMN Shewanella amazonensis SB2B	1 FMN Shewanella loihica PV-4	1 FMN Shewanella pealeana ATCC 700345	1 FMN Shewanella halifaxensis HAW-EB4	1 FMN Shewanella piezotolerans WP3	1 FMN Shewanella sediminis HAW-EB3	1 FMN Shewanella woodyi ATCC 51908	Riboflavin biosynthesis
RF00059	RNA	TPP	2 TPP Shewanella oneidensis MR-1	2 TPP Shewanella putrefaciens CN-32	2 TPP Shewanella sp W3-18-1	2 TPP Shewanella sp ANA-3	2 TPP Shewanella sp MR-4	2 TPP Shewanella sp MR-7	1 TPP Shewanella baltica OS155	2 TPP Shewanella denitrificans OS217	2 TPP Shewanella frigidimarina NCIMB 400	2 TPP Shewanella amazonensis SB2B	2 TPP Shewanella loihica PV-4	2 TPP Shewanella pealeana ATCC 700345	2 TPP Shewanella halifaxensis HAW-EB4	2 TPP Shewanella piezotolerans WP3	2 TPP Shewanella sediminis HAW-EB3	2 TPP Shewanella woodyi ATCC 51908	Thiamine biosynthesis
RF00080	RNA	yybP-ykoY	1 yybP-ykoY Shewanella oneidensis MR-1	1 yybP-ykoY Shewanella putrefaciens CN-32	1 yybP-ykoY Shewanella sp W3-18-1	1 yybP-ykoY Shewanella sp ANA-3	1 yybP-ykoY Shewanella sp MR-4	1 yybP-ykoY Shewanella sp MR-7	1 yybP-ykoY Shewanella baltica OS155	1 yybP-ykoY Shewanella denitrificans OS217	1 yybP-ykoY Shewanella frigidimarina NCIMB 400	2 yybP-ykoY Shewanella amazonensis SB2B	1 yybP-ykoY Shewanella loihica PV-4	2 yybP-ykoY Shewanella pealeana ATCC 700345	2 yybP-ykoY Shewanella halifaxensis HAW-EB4	1 yybP-ykoY Shewanella piezotolerans WP3	1 yybP-ykoY Shewanella sediminis HAW-EB3	1 yybP-ykoY Shewanella woodyi ATCC 51908
RF00114	RNA	S15	1 S15 Shewanella oneidensis MR-1	1 S15 Shewanella putrefaciens CN-32	1 S15 Shewanella sp W3-18-1	1 S15 Shewanella sp ANA-3	1 S15 Shewanella sp MR-4	1 S15 Shewanella sp MR-7	1 S15 Shewanella baltica OS155	1 S15 Shewanella denitrificans OS217	1 S15 Shewanella frigidimarina NCIMB 400	1 S15 Shewanella amazonensis SB2B	1 S15 Shewanella loihica PV-4	1 S15 Shewanella pealeana ATCC 700345	1 S15 Shewanella halifaxensis HAW-EB4	1 S15 Shewanella piezotolerans WP3	1 S15 Shewanella sediminis HAW-EB3	1 S15 Shewanella woodyi ATCC 51908	Ribosome biogenesis
RF00167	RNA	Purine												2 Purine Shewanella pealeana ATCC 700345	2 Purine Shewanella halifaxensis HAW-EB4	1 Purine Shewanella piezotolerans WP3	1 Purine Shewanella sediminis HAW-EB3	1 Purine Shewanella woodyi ATCC 51908	Purine metabolism
RF00168	RNA	Lysine	3 Lysine Shewanella oneidensis MR-1	2 Lysine Shewanella putrefaciens CN-32	2 Lysine Shewanella sp W3-18-1	2 Lysine Shewanella sp ANA-3	2 Lysine Shewanella sp MR-4	2 Lysine Shewanella sp MR-7	2 Lysine Shewanella baltica OS155	2 Lysine Shewanella denitrificans OS217	2 Lysine Shewanella frigidimarina NCIMB 400	2 Lysine Shewanella amazonensis SB2B	2 Lysine Shewanella loihica PV-4	3 Lysine Shewanella pealeana ATCC 700345	3 Lysine Shewanella halifaxensis HAW-EB4	2 Lysine Shewanella piezotolerans WP3	2 Lysine Shewanella sediminis HAW-EB3	2 Lysine Shewanella woodyi ATCC 51908	Lysine biosynthesis
RF00174	RNA	Cobalamin	2 Cobalamin Shewanella oneidensis MR-1	2 Cobalamin Shewanella putrefaciens CN-32	2 Cobalamin Shewanella sp W3-18-1	2 Cobalamin Shewanella sp ANA-3	2 Cobalamin Shewanella sp MR-4	2 Cobalamin Shewanella sp MR-7	2 Cobalamin Shewanella baltica OS155	1 Cobalamin Shewanella denitrificans OS217	2 Cobalamin Shewanella frigidimarina NCIMB 400	2 Cobalamin Shewanella amazonensis SB2B	2 Cobalamin Shewanella loihica PV-4	2 Cobalamin Shewanella pealeana ATCC 700345	2 Cobalamin Shewanella halifaxensis HAW-EB4	2 Cobalamin Shewanella piezotolerans WP3	5 Cobalamin Shewanella sediminis HAW-EB3	2 Cobalamin Shewanella woodyi ATCC 51908	Cobalamin biosynthesis
RF00504	RNA	Glycine	1 Glycine Shewanella oneidensis MR-1	1 Glycine Shewanella putrefaciens CN-32	1 Glycine Shewanella sp W3-18-1	1 Glycine Shewanella sp ANA-3	1 Glycine Shewanella sp MR-4	1 Glycine Shewanella sp MR-7	1 Glycine Shewanella baltica OS155			1 Glycine Shewanella amazonensis SB2B	1 Glycine Shewanella loihica PV-4	1 Glycine Shewanella pealeana ATCC 700345	1 Glycine Shewanella halifaxensis HAW-EB4	1 Glycine Shewanella piezotolerans WP3	1 Glycine Shewanella sediminis HAW-EB3	1 Glycine Shewanella woodyi ATCC 51908	Glycine metabolism
RF00506	RNA	Thr_leader	1 Thr_leader Shewanella oneidensis MR-1	1 Thr_leader Shewanella putrefaciens CN-32	1 Thr_leader Shewanella sp W3-18-1	1 Thr_leader Shewanella sp ANA-3	1 Thr_leader Shewanella sp MR-4	1 Thr_leader Shewanella sp MR-7	1 Thr_leader Shewanella baltica OS155	1 Thr_leader Shewanella denitrificans OS217	1 Thr_leader Shewanella frigidimarina NCIMB 400	1 Thr_leader Shewanella amazonensis SB2B	1 Thr_leader Shewanella loihica PV-4	1 Thr_leader Shewanella pealeana ATCC 700345	1 Thr_leader Shewanella halifaxensis HAW-EB4	1 Thr_leader Shewanella piezotolerans WP3	1 Thr_leader Shewanella sediminis HAW-EB3	1 Thr_leader Shewanella woodyi ATCC 51908	Threonine biosynthesis
RF00512	RNA	Leu_leader	1 Leu_leader Shewanella oneidensis MR-1	1 Leu_leader Shewanella putrefaciens CN-32	1 Leu_leader Shewanella sp W3-18-1	1 Leu_leader Shewanella sp ANA-3	1 Leu_leader Shewanella sp MR-4	1 Leu_leader Shewanella sp MR-7	1 Leu_leader Shewanella baltica OS155	1 Leu_leader Shewanella denitrificans OS217	1 Leu_leader Shewanella frigidimarina NCIMB 400	1 Leu_leader Shewanella amazonensis SB2B	1 Leu_leader Shewanella loihica PV-4	1 Leu_leader Shewanella pealeana ATCC 700345	1 Leu_leader Shewanella halifaxensis HAW-EB4	1 Leu_leader Shewanella piezotolerans WP3	1 Leu_leader Shewanella sediminis HAW-EB3	1 Leu_leader Shewanella woodyi ATCC 51908	Branched-chain amino acid biosynthesis
RF00513	RNA	Trp_leader	1 Trp_leader Shewanella oneidensis MR-1	1 Trp_leader Shewanella putrefaciens CN-32	1 Trp_leader Shewanella sp W3-18-1	1 Trp_leader Shewanella sp ANA-3	1 Trp_leader Shewanella sp MR-4	1 Trp_leader Shewanella sp MR-7	1 Trp_leader Shewanella baltica OS155	1 Trp_leader Shewanella denitrificans OS217	1 Trp_leader Shewanella frigidimarina NCIMB 400	1 Trp_leader Shewanella amazonensis SB2B	1 Trp_leader Shewanella loihica PV-4	1 Trp_leader Shewanella pealeana ATCC 700345	1 Trp_leader Shewanella halifaxensis HAW-EB4	1 Trp_leader Shewanella piezotolerans WP3	1 Trp_leader Shewanella sediminis HAW-EB3	1 Trp_leader Shewanella woodyi ATCC 51908	Tryptophan biosynthesis
RF00514	RNA	His_leader	1 His_leader Shewanella oneidensis MR-1	1 His_leader Shewanella putrefaciens CN-32	1 His_leader Shewanella sp W3-18-1	1 His_leader Shewanella sp ANA-3	1 His_leader Shewanella sp MR-4	1 His_leader Shewanella sp MR-7	1 His_leader Shewanella baltica OS155	1 His_leader Shewanella denitrificans OS217	1 His_leader Shewanella frigidimarina NCIMB 400	1 His_leader Shewanella amazonensis SB2B	1 His_leader Shewanella loihica PV-4	1 His_leader Shewanella pealeana ATCC 700345	1 His_leader Shewanella halifaxensis HAW-EB4	1 His_leader Shewanella piezotolerans WP3	1 His_leader Shewanella sediminis HAW-EB3	1 His_leader Shewanella woodyi ATCC 51908	Histidine biosynthesis
RF01051	RNA	GEMM_RNA_motif	1 GEMM_RNA_motif Shewanella oneidensis MR-1		1 GEMM_RNA_motif Shewanella sp W3-18-1	1 GEMM_RNA_motif Shewanella sp ANA-3	3 GEMM_RNA_motif Shewanella sp MR-4	3 GEMM_RNA_motif Shewanella sp MR-7	2 GEMM_RNA_motif Shewanella baltica OS155	1 GEMM_RNA_motif Shewanella denitrificans OS217			1 GEMM_RNA_motif Shewanella loihica PV-4	1 GEMM_RNA_motif Shewanella pealeana ATCC 700345	2 GEMM_RNA_motif Shewanella halifaxensis HAW-EB4	1 GEMM_RNA_motif Shewanella piezotolerans WP3	1 GEMM_RNA_motif Shewanella sediminis HAW-EB3	2 GEMM_RNA_motif Shewanella woodyi ATCC 51908	Second messenger response
RF01055	RNA	MOCO_RNA_motif	1 MOCO_RNA_motif Shewanella oneidensis MR-1	1 MOCO_RNA_motif Shewanella putrefaciens CN-32	1 MOCO_RNA_motif Shewanella sp W3-18-1	1 MOCO_RNA_motif Shewanella sp ANA-3	1 MOCO_RNA_motif Shewanella sp MR-4	1 MOCO_RNA_motif Shewanella sp MR-7	1 MOCO_RNA_motif Shewanella baltica OS155	1 MOCO_RNA_motif Shewanella denitrificans OS217	1 MOCO_RNA_motif Shewanella frigidimarina NCIMB 400	1 MOCO_RNA_motif Shewanella amazonensis SB2B	1 MOCO_RNA_motif Shewanella loihica PV-4	1 MOCO_RNA_motif Shewanella pealeana ATCC 700345	1 MOCO_RNA_motif Shewanella halifaxensis HAW-EB4	1 MOCO_RNA_motif Shewanella piezotolerans WP3	1 MOCO_RNA_motif Shewanella sediminis HAW-EB3	1 MOCO_RNA_motif Shewanella woodyi ATCC 51908	Molybdopterin biosynthesis; Molybdenum homeostasis
RF01068	RNA	mini-ykkC	1 mini-ykkC Shewanella oneidensis MR-1	1 mini-ykkC Shewanella putrefaciens CN-32	1 mini-ykkC Shewanella sp W3-18-1	1 mini-ykkC Shewanella sp ANA-3	1 mini-ykkC Shewanella sp MR-4	1 mini-ykkC Shewanella sp MR-7	1 mini-ykkC Shewanella baltica OS155										Multidrug resistance

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

Collection of regulogs in Shewanellaceae taxonomic group

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