RegulonDB

Regulon
Regulated gene(s)	aceA, aceB, aceE, aceF, aceK, ackA, acnA, acnB, aldA, appA, appB, appC, appX, appY, arcZ, betA, betB, betI, betT, cadA, cadB, caiA, caiB, caiC, caiD, caiE, caiT, citC, citD, citE, citF, citG, citX, cydA, cydB, cydC, cydD, cyoA, cyoB, cyoC, cyoD, cyoE, dctA, dcuC, dpiA, dpiB, fadA, fadB, fadD, fadE, fadH, fadI, fadJ, fadL, fnr, focA, fumA, fumB, fumC, gadA, gadE, gadF, gadX, gatA, gatB, gatD, gatY, gatZ, glcA, glcB, glcD, glcE, glcF, glcG, glpA, glpB, glpC, glpD, gltA, grcA, hemA, hyaA, hyaB, hyaC, hyaD, hyaE, hyaF, hybA, hybB, hybC, hybD, hybE, hybF, hybG, hybO, icd, iraM, lldD, lldP, lldR, lpd, mdh, moeA, moeB, ndh, nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN, ompW, oppA, oppB, oppC, oppD, oppF, pflB, prfA, prmC, ptsG, puuA, puuB, puuC, puuD, puuE, puuP, puuR, rhaT, rmf, rplB, rplC, rplD, rplP, rplV, rplW, rpmC, rpoS, rpsC, rpsJ, rpsQ, rpsS, rsd, rutA, rutB, rutC, rutD, rutE, rutF, rutG, sdhA, sdhB, sdhC, sdhD, sdhX, sodA, sroD, ssb, sucA, sucB, sucC, sucD, tpx, treB, treC, ubiA, ubiC, uvrA, xylR, ybdN, ydeA, ymjE Read more >
Multifun term(s) of regulated gene(s)	MultiFun Term (List of genes associated to the multifun term) membrane (48) appB, appC, betA, betT, cadB, caiT, cydA, cydB, cydC, cydD, cyoA, cyoB, cyoC, cyoD, cyoE, dctA, dcuC, dpiB, focA, gatA, gatC, glcA, glpA, glpB, glpC, hyaC, hybB, lldP, nuoA, nuoH, nuoJ, nuoK, nuoL, nuoM, nuoN, oppB, oppC, ptsG, puuP, rhaT, rutG, sdhA, sdhB, sdhC, sdhD, treB, ubiA, ydeA aerobic respiration (33) cyoA, cyoB, cyoC, cyoD, cyoE, glpD, hyaA, hyaB, hyaC, hyaD, hyaE, hyaF, lldD, lldR, ndh, nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN, sdhA, sdhB, sdhC, sdhD, ubiA anaerobic respiration (31) fnr, glpA, glpB, glpC, grcA, hyaA, hyaB, hyaC, hyaD, hyaE, hyaF, hybB, hybC, hybD, hybF, hybG, hybO, lldD, nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN electron donors (30) glpA, glpB, glpC, glpD, hyaA, hyaB, hyaC, hybA, hybB, hybC, hybO, lldD, ndh, nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN, sdhA, sdhB, sdhC, sdhD carbon compounds (24) aceE, aceF, ackA, acnB, aldA, caiT, dctA, dcuC, focA, gatA, gatB, gatC, gatD, gatY, gatZ, glcA, glcB, lldP, lpd, mdh, ptsG, rhaT, treC, xylR TCA cycle (16) acnA, acnB, fumA, fumB, fumC, gltA, icd, mdh, sdhA, sdhB, sdhC, sdhD, sucA, sucB, sucC, sucD Oxidoreduction-driven Active Transporters (16) cyoA, cyoB, cyoC, nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN translation (13) prfA, rmf, rplB, rplC, rplD, rplP, rplV, rplW, rpmC, rpsC, rpsJ, rpsQ, rpsS ribosomes (12) rmf, rplB, rplC, rplD, rplP, rplV, rplW, rpmC, rpsC, rpsJ, rpsQ, rpsS Porters (Uni-, Sym- and Antiporters) (11) betT, cadB, caiT, dctA, dcuC, focA, glcA, lldP, puuP, rhaT, rutG ribosomal proteins (11) rplB, rplC, rplD, rplP, rplV, rplW, rpmC, rpsC, rpsJ, rpsQ, rpsS posttranslational modification (9) aceK, citC, citX, dpiB, hyaD, hybD, hybF, prmC, ptsG electron acceptors (9) appB, appC, caiA, cydA, cydB, cyoA, cyoB, cyoC, cyoD Transcription related (9) appY, betI, dpiA, fnr, gadE, gadX, lldR, rsd, xylR fatty acids (8) fadA, fadB, fadD, fadE, fadH, fadI, fadJ, fadL amines (7) caiC, caiE, puuA, puuB, puuC, puuD, puuE activator (6) appY, dpiA, fnr, gadE, gadX, xylR nitrogen metabolism (6) rutA, rutB, rutC, rutD, rutE, rutF operon (5) betI, dpiA, lldR, rplD, xylR Phosphotransferase Systems (PEP-dependent PTS) (5) gatA, gatB, gatC, ptsG, treB chaperoning, repair (refolding) (5) hyaE, hyaF, hybE, hybG, oppA glyoxylate degradation (4) aceE, aceF, glcB, mdh pH (4) cadA, gadA, gadE, grcA carnitine metabolism (4) caiA, caiB, caiD, caiE fermentation (4) fumB, fumC, mdh, pflB misc. glycerol metabolism (4) glpA, glpB, glpC, glpD cytochromes (4) hyaC, hybB, sdhC, sdhD defense/survival (4) oppB, oppC, oppD, oppF glyoxylate bypass (3) aceA, aceB, aceK pyruvate dehydrogenase (3) aceE, aceF, lpd covalent modification, demodification, maturation (3) aceK, citC, ptsG betaine biosynthesis (3) betA, betB, betT osmotic pressure (3) betA, betB, betI repressor (3) betI, fnr, lldR unassigned reversible reactions (3) citD, citE, citF glycolate metabolism (3) glcD, glcE, glcF transcriptional level (3) puuR, rplD, rpsJ amino acids (2) ackA, lpd posttranscriptional (2) acnA, iraM other (mechanical, nutritional, oxidative stress) (2) acnA, grcA stimulon (2) appY, rsd starvation (2) appY, iraM prophage genes and phage related functions (2) appY, fadL ABC superfamily, ATP binding and membrane component (2) cydC, cydD two component regulatory systems (external signal) (2) dpiA, dpiB Beta barrel porins (The Outer Membrane Porin (OMP) Functional Superfamily) (2) fadL, ompW molybdenum (2) moeA, moeB ABC superfamily, membrane component (2) oppB, oppC ABC superfamily ATP binding cytoplasmic component (2) oppD, oppF sigma factors, anti-sigmafactors (2) rpoS, rsd detoxification (2) sodA, tpx SOS response (2) ssb, uvrA menaquinone, ubiquinone (2) ubiA, ubiC pyruvate oxidation (1) ackA acetate catabolism (1) ackA threonine catabolism (1) ackA methylglyoxal metabolism (1) aldA metabolism of other compounds (1) appA RNA related (1) arcZ acyl carrier protein (1) citD protein related (1) citG unknown (1) dctA phospholipid (1) fadD fatty acids and phosphatidic acid (1) fadH global (1) fnr heme, porphyrine (1) hemA formyl-THF biosynthesis (1) lpd central intermediary metabolism (1) mdh ABC superfamily, periplasmic binding component (1) oppA translation attenuation and efficiency (1) rplD antisense RNA (1) sdhX DNA recombination (1) ssb misc. glucose metabolism (1) treB DNA repair (1) uvrA radiation (1) uvrA Putative uncharacterized transport protein (1) ydeA Read more >
Regulated operon(s)	aceBAK, ackA-pta, acnB, aldA, appCBXA, appY, arcZ, betIBA, betT, cadBA, caiTABCDE, citCDEFXG, cydAB, cydDC, cyoABCDE, dctA, dcuB-fumB, dcuC, dpiBA, fadBA, fadD-sroD, fadE, fadH, fadIJ, fadL, fnr, focA-pflB, fumAC, gadAXW, gadEF-mdtEF, gatYZABCD, glcDEFGBA, glpABC, glpD, gltA, grcA, hemA-prfA-prmC, hyaABCDEF, hybOABCDEFG, icd, iraM, lldPRD, mdh, moeAB, ndh, nlpD-rpoS, nuoABCEFGHIJKLMN, ompW, oppABCDF, pdhR-aceEF-lpd, ptsG, puuA-ymjE-puuP, puuDRCBE, rhaT, rmf, rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ, rsd, rutABCDEFG, sdhCDAB-sucABCD-sdhX, sodA, ssb, tpx, treBC, ubiCA, uvrA, ybdN, ydeA, ymiC-acnA Read more >
First gene in the operon(s)	aceB, aceE, ackA, acnA, acnB, aldA, appC, appY, arcZ, betI, betT, cadB, caiT, citC, cydA, cydD, cyoA, dctA, dcuC, dpiB, fadB, fadD, fadE, fadH, fadI, fadL, fnr, focA, fumA, fumB, fumC, gadA, gadE, gatY, glcD, glpA, glpD, gltA, grcA, hemA, hyaA, hybO, icd, iraM, lldP, lpd, mdh, moeA, ndh, nuoA, ompW, oppA, ptsG, puuA, puuD, rhaT, rmf, rpoS, rpsJ, rsd, rutA, sdhC, sodA, ssb, sucA, treB, ubiC, uvrA, xylR, ybdN, ydeA Read more >
Simple and complex regulons	AdiY,ArcA,CRP,FNR,Fis,GadE-RcsB,GadW,GadX,H-NS,RcsB,TorR,ppGpp AppY,ArcA,Fis,IscR,NarL,NarP,YdeO AppY,ArcA,YdeO ArcA ArcA,BetI,Cra ArcA,BtsR,CRP,DpiA,FlhDC ArcA,CRP,CaiF,FNR,H-NS ArcA,CRP,Cra,CusR,FNR,Fis,Fur,GadE,HprR,PdhR ArcA,CRP,Cra,FNR,MarA,Rob,SoxS ArcA,CRP,Cra,Fis ArcA,CRP,Cra,IHF,IclR ArcA,CRP,DcuR ArcA,CRP,DnaA,FNR,MarA,Rob,SoxS ArcA,CRP,DpiA,FNR,NarL ArcA,CRP,FNR ArcA,CRP,FNR,Fis,FlhDC,GlpR ArcA,CRP,FNR,Fis,Fur ArcA,CRP,FNR,Fis,Fur,PdhR ArcA,CRP,FNR,Fur ArcA,CRP,FNR,Fur,IHF,MarA,Rob,SoxR,SoxS ArcA,CRP,FNR,Fur,MarA,SoxR,SoxS ArcA,CRP,FNR,Fur,NarL,SoxS ArcA,CRP,FNR,IHF,NarL ArcA,CRP,FadR,HipB ArcA,CRP,FadR,OmpR,PhoP,ppGpp ArcA,CRP,FadR,ppGpp ArcA,CRP,Fis,Mlc,SoxS ArcA,CRP,Fur,GadX,MqsA,ppGpp ArcA,CRP,GatR ArcA,CRP,GlpR ArcA,CRP,IHF ArcA,CRP,McbR,RcdA,SdiA,SlyA,ppGpp ArcA,CRP,PuuR ArcA,CRP,RhaS ArcA,CRP,TreR ArcA,CadC,GadE-RcsB,GadX,H-NS,Lrp,OmpR ArcA,CysB,FNR ArcA,DksA-ppGpp,FNR ArcA,DpiA ArcA,FNR ArcA,FNR,Fis,Fur ArcA,FNR,Fis,Fur,IHF,NsrR,PdhR ArcA,FNR,Fur,IHF ArcA,FNR,H-NS ArcA,FNR,H-NS,HypT ArcA,FNR,IHF ArcA,FNR,IHF,NarL ArcA,FNR,NarL ArcA,FNR,NsrR ArcA,FNR,PhoP ArcA,FNR,PuuR ArcA,FadR ArcA,FadR,Fis ArcA,Fur,Lrp,ModE ArcA,GadE,PhoP ArcA,GadX,YdeO ArcA,GlcC,IHF,PdhR ArcA,LexA ArcA,LldR ArcA,McbR,RcdA,SdiA,SlyA ArcA,NarL ArcA,NtrC,PhoP,RutR Read more >
Simple and complex regulatory phrases	Regulatory phrase (List of promoters regulated by the phrase) [ArcA,-](53) aceBp, aceEp, acnAp2, acnBp, aldAp, arcZp, betIp, betTp, cadBp, citCp1, cyoAp, dctAp, fadBp, fadDp, fadEp, fadHp, fadIp, fadLp, fnrp, fumAp, fumCp, gatYp, glcDp, glpABCp, glpDp, gltAp1, hybOp1, icdAp1, lldPp, lpdAp, mdhp1, ndhp, nuoAp2, ompWp, oppAp, ptsGp1, puuAp, puuDp, rhaTp, rmfp, rpoSp, rpsJp, rsdp2, sdhCp, sodAp, ssbp1, ssbp2, ssbp3, sucAp, tpxp, ubiCp, uvrAp, ydeAp [ArcA,+](27) ackAp, appCp, appYp2, caiTp, cydAp1, cydAp2, cydAp3, cydAp4, cydDp, dcuCp, dpiBp, focAp1, focAp2, fumBp, gadAp, gadEp1, gadEp3, grcAp1, hemAp1, hyaAp, iraMp, moeAp, rutAp, sdhCp, treBp, xylRp, ybdNp

Transcription factor binding sites (TFBSs) arrangements

Functional conformation	Function	Promoter	Sigma factor	Central Rel-Pos	Distance to first Gene	Genes	Sequence	LeftPos	RightPos	Evidence (Confirmed, Strong, Weak)	References
ArcA-Phosphorylated	repressor	aceBp	Sigma70	nd	nd	aceB, aceA, aceK	nd nd	nd	nd	[RBM]	[11]
ArcA-Phosphorylated	repressor	aceEp	Sigma70, Sigma38	nd	nd	aceE, aceF	nd nd	nd	nd	[GEA]	[12]
ArcA-Phosphorylated	activator	ackAp	Sigma32	nd	nd	ackA	nd nd	nd	nd	[GEA]	[12]
ArcA-Phosphorylated	repressor	acnAp2	Sigma70	-34.0	-84.0	acnA	aatttgggttGTTATCAAATCGTTAcgcgatgttt aatttgggttGTTATCAAATCGTTAcgcgatgttt	1335740	1335754	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-170.0	-266.0	acnB	gaggcggtagTTTAAATTTTGACTAatcttgggat gaggcggtagTTTAAATTTTGACTAatcttgggat	131342	131356	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-143.0	-239.0	acnB	cttgggattcGTTGAGAAAGGTGATtatcaccatg cttgggattcGTTGAGAAAGGTGATtatcaccatg	131369	131383	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-139.0	-235.0	acnB	ggattcgttgAGAAAGGTGATTATCaccatgcgaa ttcgcatggtGATAATCACCTTTCTcaacgaatcc	131373	131387	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-119.0	-215.0	acnB	ttatcaccatGCGAATTAACGAAGTttttacggag ttatcaccatGCGAATTAACGAAGTttttacggag	131393	131407	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-113.0	-209.0	acnB	ccatgcgaatTAACGAAGTTTTTACggagggaaac gtttccctccGTAAAAACTTCGTTAattcgcatgg	131399	131413	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-57.0	-153.0	acnB	gattcagccaCTTTTTTATGTTGCTtttttgtaaa gattcagccaCTTTTTTATGTTGCTtttttgtaaa	131455	131469	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	acnBp	Sigma70	-48.0	-144.0	acnB	acttttttatGTTGCTTTTTTGTAAacagattaac acttttttatGTTGCTTTTTTGTAAacagattaac	131464	131478	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[13]
ArcA-Phosphorylated	repressor	aldAp	Sigma70	-157.0	-199.0	aldA	aaagtcgctcGTTACGTTAAAAATTgcccgtttgt aaagtcgctcGTTACGTTAAAAATTgcccgtttgt	1488026	1488040	[APIORCISFBSCS], [BPP]	[14]
ArcA-Phosphorylated	repressor	aldAp	Sigma70	-137.0	-179.0	aldA	aaattgcccgTTTGTGAACCACTTGtttgcaaacg aaattgcccgTTTGTGAACCACTTGtttgcaaacg	1488046	1488060	[APIORCISFBSCS], [BPP]	[14]
ArcA-Phosphorylated	repressor	aldAp	Sigma70	-5.0	-47.0	aldA	gatgattgatGTTAATTAACAATGTattcaccgaa gatgattgatGTTAATTAACAATGTattcaccgaa	1488178	1488192	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/SM)], [SM]	[14], [15]
ArcA-Phosphorylated	repressor	aldAp	Sigma70	2.0	-41.0	aldA	tgatgttaatTAACAATGTATTCACcgaaaacaaa tttgttttcgGTGAATACATTGTTAattaacatca	1488184	1488198	[AIBSCS], [BPP]	[14], [15]
ArcA-Phosphorylated	repressor	aldAp	Sigma70	13.0	-30.0	aldA	aacaatgtatTCACCGAAAACAAACatataaatca tgatttatatGTTTGTTTTCGGTGAatacattgtt	1488195	1488209	[AIBSCS], [BPP], [CV(CHIP-SV/SM)], [SM]	[14], [15]
ArcA-Phosphorylated	activator	appCp	Sigma70, Sigma38	nd	nd	appC, appB, appX, appA	nd nd	nd	nd	[GEA]	[16]
ArcA-Phosphorylated	activator	appYp2	Sigma38	-197.0	-222.0	appY	agtgagtttaTGTTAATAAAAagcatagtaa nd	583454	583464	[AIBSCS]	[17]
ArcA-Phosphorylated	repressor	arcZp	nd	-29.0	-29.0	arcZ	aactgattcaTGTAACAAATCATTTaagttttgct agcaaaacttAAATGATTTGTTACAtgaatcagtt	3350541	3350555	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[18]
ArcA-Phosphorylated	repressor	betIp	Sigma70	-74.0	-101.0	betI, betB, betA	cactgttattGTTACTATTTAAAATcaaattcgta cactgttattGTTACTATTTAAAATcaaattcgta	329428	329442	[BCE], [CV(GEA/ROMA)], [GEA]	[19]
ArcA-Phosphorylated	repressor	betIp	Sigma70	-6.0	-33.0	betI, betB, betA	tcaataaccgCTTTAATAGATAAACaccgctgatg catcagcggtGTTTATCTATTAAAGcggttattga	329360	329374	[BCE]	[17], [19]
ArcA-Phosphorylated	repressor	betTp	Sigma70	3.0	-40.0	betT	tgtcttaattGTTACGAATTTGATTttaaatagta tgtcttaattGTTACGAATTTGATTttaaatagta	329416	329430	[BCE], [CV(GEA/ROMA)], [GEA]	[17], [19]
ArcA-Phosphorylated	repressor	betTp	Sigma70	15.0	-28.0	betT	tacgaatttgATTTTAAATAGTAACaataacagtg cactgttattGTTACTATTTAAAATcaaattcgta	329428	329442	[BCE], [CV(GEA/ROMA)], [GEA]	[19]
ArcA-Phosphorylated	repressor	cadBp	Sigma70	-179.0	-254.0	cadB, cadA	ataatttttaTTACATAAATTTAACcagagaatgt acattctctgGTTAAATTTATGTAAtaaaaattat	4360278	4360292	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	activator	caiTp	Sigma70	-101.0	-207.0	caiT, caiA, caiB, caiC, caiD, caiE	cagagcataaCAAACTGATTATTAAtcaaaattaa cagagcataaCAAACTGATTATTAAtcaaaattaa	42131	42145	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	activator	caiTp	Sigma70	-91.0	-197.0	caiT, caiA, caiB, caiC, caiD, caiE	caaactgattATTAATCAAAATTAAcgaaaaaacg cgttttttcgTTAATTTTGATTAATaatcagtttg	42121	42135	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	activator	caiTp	Sigma70	28.0	-79.0	caiT, caiA, caiB, caiC, caiD, caiE	cgtccacgagGTTAATAATAATTATattaaatgtt cgtccacgagGTTAATAATAATTATattaaatgtt	42003	42017	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	activator	caiTp	Sigma70	50.0	-57.0	caiT, caiA, caiB, caiC, caiD, caiE	tatattaaatGTTAACAAAAATAAAacaaacggga tatattaaatGTTAACAAAAATAAAacaaacggga	41981	41995	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	repressor	citCp1	nd	64.5	-32.5	citC, citD, citE, citF, citX, citG	attcgttgcaAATCGATAACAacatgcacct aggtgcatgtTGTTATCGATttgcaacgaa	651884	651894	[AIBSCS]	[20]
ArcA-Phosphorylated	activator	cydAp1	Sigma70	-315.0	-603.0	cydA, cydB	ccctgggtgaGTTAATTATAATATAattataagtt ccctgggtgaGTTAATTATAATATAattataagtt	770848	770862	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [21], [22], [23]
ArcA-Phosphorylated	activator	cydAp1	Sigma70	-304.0	-592.0	cydA, cydB	ttaattataaTATAATTATAAGTTAactaaatgtt aacatttagtTAACTTATAATTATAttataattaa	770859	770873	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [21], [22], [23]
ArcA-Phosphorylated	activator	cydAp1	Sigma70	-293.0	-581.0	cydA, cydB	ataattataaGTTAACTAAATGTTAatattggcgg ataattataaGTTAACTAAATGTTAatattggcgg	770870	770884	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[15], [17], [21], [22], [23], [24], [25]
ArcA-Phosphorylated	activator	cydAp1	Sigma70	-84.0	-372.0	cydA, cydB	aagttaccttATTGAAACATGATTAacataatttg caaattatgtTAATCATGTTTCAATaaggtaactt	771079	771093	[APIORCISFBSCS], [BCE], [CV(GEA/ROMA)], [GEA]	[15], [17], [21], [22], [23], [24], [25]
ArcA-Phosphorylated	activator	cydAp1	Sigma70	135.0	-154.0	cydA, cydB	ggatcaatttGAGTTTTTATTAACAtgtttgcaac gttgcaaacaTGTTAATAAAAACTCaaattgatcc	771297	771311	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [21], [22], [23]
ArcA-Phosphorylated	activator	cydAp2	Sigma70	-77.5	-251.5	cydA, cydB	cggtaatttaGCTATAAATTGATCAccgtcgaaaa cggtaatttaGCTATAAATTGATCAccgtcgaaaa	771199	771213	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[17], [21], [23]
ArcA-Phosphorylated	activator	cydAp3	Sigma70	nd	nd	cydA, cydB	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[21], [23], [26], [27]
ArcA-Phosphorylated	activator	cydAp4	Sigma70	nd	nd	cydA, cydB	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[21], [23], [26], [27]
ArcA-Phosphorylated	activator	cydDp	Sigma70	nd	nd	cydD, cydC	nd nd	nd	nd	[GEA]	[23]
ArcA-Phosphorylated	repressor	cyoAp	Sigma70	-200.0	-243.0	cyoA, cyoB, cyoC, cyoD, cyoE	ataattatttGTTAAATAATTGTTTtatttcacat ataattatttGTTAAATAATTGTTTtatttcacat	451846	451860	[BCE], [CV(GEA/ROMA)], [GEA]	[17], [24], [28], [29]
ArcA-Phosphorylated	repressor	dctAp	Sigma70	nd	nd	dctA	nd nd	nd	nd	[GEA]	[30]
ArcA-Phosphorylated	activator	dcuCp	nd	-340.0	-455.0	dcuC	gcttgttcaaGTTAAATATTTCCGCgcatcgatta gcttgttcaaGTTAAATATTTCCGCgcatcgatta	656416	656430	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[31]
ArcA-Phosphorylated	activator	dpiBp	nd	-95.5	-346.5	dpiB, dpiA	aggtgcatgtTGTTATCGATTtgcaacgaat aggtgcatgtTGTTATCGATttgcaacgaa	651884	651894	[AIBSCS]	[20]
ArcA-Phosphorylated	repressor	fadBp	Sigma70	-29.0	-71.0	fadB, fadA	aatcttttgtTTGCATATTTTTAACacaaaataca tgtattttgtGTTAAAAATATGCAAacaaaagatt	4031035	4031049	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[5], [15], [29]
ArcA-Phosphorylated	repressor	fadDp	Sigma70	-7.0	-68.0	fadD, sroD	ggtatgatgaGTTAATATTATGTTAacggcatgta ggtatgatgaGTTAATATTATGTTAacggcatgta	1889807	1889821	[AIBSCS], [BPP]	[5]
ArcA-Phosphorylated	repressor	fadEp	nd	15.0	-89.0	fadE	gctttgttgtAATTATATTGTAAACatattgctaa gctttgttgtAATTATATTGTAAACatattgctaa	243385	243399	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[5]
ArcA-Phosphorylated	repressor	fadHp	nd	19.0	-23.0	fadH	tccgaccacaTAACAATTATTTTACatactggaca tgtccagtatGTAAAATAATTGTTAtgtggtcgga	3231635	3231649	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[5], [32]
ArcA-Phosphorylated	repressor	fadIp	Sigma70	-17.0	-59.0	fadI, fadJ	ttggctaaatGTAAAAAAATGGTTAagactatgat ttggctaaatGTAAAAAAATGGTTAagactatgat	2460521	2460535	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[5]
ArcA-Phosphorylated	repressor	fadLp	Sigma38	-38.0	-139.0	fadL	aaaaagatagAAACATACTTGCAACattccagctg cagctggaatGTTGCAAGTATGTTTctatcttttt	2461160	2461174	[AIBSCS], [BPP]	[5]
ArcA-Phosphorylated	repressor	fnrp	Sigma70	nd	nd	fnr	nd nd	nd	nd	[GEA]	[12]
ArcA-Phosphorylated	activator	focAp1	Sigma70	-251.0	-278.0	focA, pflB	tataaggttaAATATCGGTAATTTGtatttaataa tataaggttaAATATCGGTAATTTGtatttaataa	954737	954751	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[12], [33], [34], [35], [36], [37]
ArcA-Phosphorylated	activator	focAp1	Sigma70	-114.0	-141.0	focA, pflB	tttatttttaTTTGGATAATCAAATatttactccg cggagtaaatATTTGATTATCCAAAtaaaaataaa	954600	954614	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[33], [34], [35], [36], [37]
ArcA-Phosphorylated	activator	focAp1	Sigma70	-6.0	-33.0	focA, pflB	ataatgctttGTTAGTATCTCGTCGccgacttaat ataatgctttGTTAGTATCTCGTCGccgacttaat	954492	954506	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[12], [33], [34], [35], [36], [37]
ArcA-Phosphorylated	activator	focAp2	Sigma70	5.0	-33.0	focA, pflB	ataatgctttGTTAGTATCTCGTCGccgacttaat ataatgctttGTTAGTATCTCGTCGccgacttaat	954492	954506	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[12], [33], [34], [35], [36], [37]
ArcA-Phosphorylated	repressor	fumAp	Sigma70	nd	nd	fumA, fumC	nd nd	nd	nd	[GEA]	[29], [38]
ArcA-Phosphorylated	activator	fumBp	Sigma70	nd	nd	fumB	nd nd	nd	nd	[GEA]	[39]
ArcA-Phosphorylated	repressor	fumCp	Sigma38	nd	nd	fumC	nd nd	nd	nd	[GEA]	[38]
ArcA-Phosphorylated	activator	gadAp	Sigma38, Sigma70, Sigma38, Sigma70	nd	nd	gadA, gadX	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	activator	gadEp1	Sigma38	nd	nd	gadE, gadF	nd nd	nd	nd	[BPP], [GEA]	[40]
ArcA-Phosphorylated	activator	gadEp3	Sigma70	nd	nd	gadE, gadF	nd nd	nd	nd	[BPP], [GEA]	[40]
ArcA-Phosphorylated	repressor	gatYp	Sigma70	nd	nd	gatY, gatZ, gatA, gatB, gatC, gatD	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	repressor	glcDp	Sigma70	-111.0	-166.0	glcD, glcE, glcF, glcG, glcB, glcA	aagtgattatGTTACATCAATTTAAcattgagtta aagtgattatGTTACATCAATTTAAcattgagtta	3128180	3128194	[BPP], [GEA]	[41]
ArcA-Phosphorylated	repressor	glcDp	Sigma70	-104.0	-159.0	glcD, glcE, glcF, glcG, glcB, glcA	tatgttacatCAATTTAACATTGAGttaaccaaga tatgttacatCAATTTAACATTGAGttaaccaaga	3128173	3128187	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[15], [41]
ArcA-Phosphorylated	repressor	glpABCp	Sigma70	nd	nd	glpA, glpB, glpC	nd nd	nd	nd	[GEA]	[42]
ArcA-Phosphorylated	repressor	glpDp	Sigma70	nd	nd	glpD	nd nd	nd	nd	[GEA]	[42]
ArcA-Phosphorylated	repressor	gltAp1	Sigma70	-47.0	-346.0	gltA	tgacaatcatTCAACAAAGTTGTTAcaaacattac tgacaatcatTCAACAAAGTTGTTAcaaacattac	754807	754821	[APIORCISFBSCS], [BCE], [CV(GEA/ROMA)], [GEA]	[17], [23], [28], [43], [44]
ArcA-Phosphorylated	activator	grcAp1	Sigma70	-99.0	-173.0	grcA	ttcacacccgCATAAGTTGATGTAAaacaataaaa ttcacacccgCATAAGTTGATGTAAaacaataaaa	2716615	2716629	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[45]
ArcA-Phosphorylated	activator	grcAp1	Sigma70	-82.0	-156.0	grcA	tgatgtaaaaCAATAAAATCCATTTgcgaccatac tgatgtaaaaCAATAAAATCCATTTgcgaccatac	2716598	2716612	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[45]
ArcA-Phosphorylated	activator	hemAp1	Sigma70	nd	nd	hemA, prfA, prmC	nd nd	nd	nd	[GEA]	[46], [47]
ArcA-Phosphorylated	activator	hyaAp	Sigma70, Sigma38	-67.0	-222.0	hyaA, hyaB, hyaC, hyaD, hyaE, hyaF	aaaaataggtCCATTTTTATCGCTAaaagataaat aaaaataggtCCATTTTTATCGCTAaaagataaat	1031910	1031924	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[48], [49]
ArcA-Phosphorylated	activator	hyaAp	Sigma70, Sigma38	-7.5	-162.5	hyaA, hyaB, hyaC, hyaD, hyaE, hyaF	gtgcaaaagtTTCACTACGCTTTATTAACAATActttctggcg nd	1031966	1031988	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[50]
ArcA-Phosphorylated	repressor	hybOp1	Sigma70	-57.0	-159.0	hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG	attatcttgcTTTAATTAATTACACtaatgcttct agaagcattaGTGTAATTAATTAAAgcaagataat	3146413	3146427	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[49]
ArcA-Phosphorylated	repressor	icdAp1	Sigma70	-3.0	-118.0	icd	caatagggtaGTATTGACAAGCCAATtacaaatcat gttaatgattTGTAATTGGCTTGTCaatactaccc	1194998	1195013	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[23], [28], [51], [52]
ArcA-Phosphorylated	repressor	icdAp1	Sigma70	16.0	-100.0	icd	aagccaattaCAAATCATTAACAAAAaattgctcta attttttgttAATGATTTGTAATTGgcttgtcaat	1195016	1195031	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[23], [28], [51], [52]
ArcA-Phosphorylated	activator	iraMp	nd	-170.5	-257.5	iraM	ataaaggctaTGTTTTAATTACAGGatgttcagtc ataaaggctaTGTTTTAATTACAGGatgttcagtc	1212253	1212267	[AIBSCS]	[53]
ArcA-Phosphorylated	activator	iraMp	nd	-16.5	-103.5	iraM	tataagccatCATTTTAATTAATTTatttttttga tataagccatCATTTTAATTAATTTatttttttga	1212099	1212113	[AIBSCS]	[53]
ArcA-Phosphorylated	repressor	lldPp	Sigma70	-18.0	-128.0	lldP, lldR, lldD	gttgccaataCATAACATTTAGTTAaccattcatt gttgccaataCATAACATTTAGTTAaccattcatt	3777264	3777278	[AIBSCS], [APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[15], [17], [21]
ArcA-Phosphorylated	repressor	lldPp	Sigma70	10.0	-101.0	lldP, lldR, lldD	cattcattgtCATTATCCCTACACAacacaattgg ccaattgtgtTGTGTAGGGATAATGacaatgaatg	3777291	3777305	[BPP], [GEA]	[15], [17], [21]
ArcA-Phosphorylated	repressor	lpdAp	Sigma70	-27.0	-222.0	lpd	cgtttgttgtTTAAAAATTGTTAACaattttgtaa ttacaaaattGTTAACAATTTTTAAacaacaaacg	127683	127697	[AIBSCS]	[15]
ArcA-Phosphorylated	repressor	lpdAp	Sigma70	-18.0	-213.0	lpd	tttaaaaattGTTAACAATTTTGTAaaataccgac tttaaaaattGTTAACAATTTTGTAaaataccgac	127692	127706	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[15], [28], [54], [55], [56]
ArcA-Phosphorylated	repressor	mdhp1	Sigma70	27.0	-19.0	mdh	catatcttagTTTATCAATATAATAaggagtttag catatcttagTTTATCAATATAATAaggagtttag	3384280	3384294	[BCE], [CV(GEA/ROMA)], [GEA]	[17], [28], [43], [57]
ArcA-Phosphorylated	activator	moeAp	Sigma70	-137.0	-167.0	moeA, moeB	tggttcgccaCTTTTGCTATAAATAtcagaatttt aaaattctgaTATTTATAGCAAAAGtggcgaacca	866524	866538	[BPP], [GEA]	[58]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	-57.0	-150.0	ndh	cttttcagcaACAAAACTTGATTAAcatcaatttt aaaattgatgTTAATCAAGTTTTGTtgctgaaaag	1165928	1165942	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	36.0	-58.0	ndh	gtaacctgttGTTAATTAAGAGCTAtgttaataac gtaacctgttGTTAATTAAGAGCTAtgttaataac	1166020	1166034	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	52.0	-42.0	ndh	taagagctatGTTAATAACCATTAAttaacaattg taagagctatGTTAATAACCATTAAttaacaattg	1166036	1166050	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	57.0	-37.0	ndh	gctatgttaaTAACCATTAATTAACaattggttaa ttaaccaattGTTAATTAATGGTTAttaacatagc	1166041	1166055	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	66.0	-28.0	ndh	ataaccattaATTAACAATTGGTTAataaatttaa ttaaatttatTAACCAATTGTTAATtaatggttat	1166050	1166064	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	ndhp	Sigma70	68.0	-26.0	ndh	aaccattaatTAACAATTGGTTAATaaatttaagg ccttaaatttATTAACCAATTGTTAattaatggtt	1166052	1166066	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15], [59]
ArcA-Phosphorylated	repressor	nuoAp2	Sigma70	-108.0	-198.0	nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN	tgctaatggtGTTGATATTATGTAAactaatgtga tgctaatggtGTTGATATTATGTAAactaatgtga	2405263	2405277	[BCE], [CV(CHIP-SV/GEA/ROMA)], [CV(CHIP-SV/SM)], [CV(GEA/ROMA)], [CV(GEA/ROMA/SM)], [GEA], [SM]	[17], [23], [28], [60]
ArcA-Phosphorylated	repressor	ompWp	nd	1.5	-28.5	ompW	tgtaggtataTTCGTCACGTTTTTATAACcataacgacg nd	1313983	1314001	[AIBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[61], [62]
ArcA-Phosphorylated	repressor	oppAp	Sigma28	nd	nd	oppA, oppB, oppC, oppD, oppF	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	repressor	ptsGp1	nd	-85.0	-188.0	ptsG	tgtgacatatGTTTTGTCAAAATGTgcaacttctc tgtgacatatGTTTTGTCAAAATGTgcaacttctc	1157674	1157688	[BPP], [GEA]	[63]
ArcA-Phosphorylated	repressor	ptsGp1	nd	-48.0	-151.0	ptsG	atgatctgaaGTTGAAACGTGATAGccgtcaaaca atgatctgaaGTTGAAACGTGATAGccgtcaaaca	1157711	1157725	[BPP], [GEA]	[63]
ArcA-Phosphorylated	repressor	ptsGp1	nd	2.0	-102.0	ptsG	tattttactcTGTGTAATAAATAAAgggcgcttag tattttactcTGTGTAATAAATAAAgggcgcttag	1157760	1157774	[BPP], [GEA]	[63]
ArcA-Phosphorylated	repressor	puuAp	Sigma38	-165.0	-225.0	puuA, ymjE, puuP	cgataaccggATTGTTCATTATATTttccatgctc cgataaccggATTGTTCATTATATTttccatgctc	1361126	1361140	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[53]
ArcA-Phosphorylated	repressor	puuDp	Sigma38	82.0	14.0	puuD, puuR, puuC, puuB, puuE	gagcatggaaAATATAATGAACAATccggttatcg cgataaccggATTGTTCATTATATTttccatgctc	1361126	1361140	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[53]
ArcA-Phosphorylated	repressor	rhaTp	Sigma70	-184.0	-225.0	rhaT	gtaagcagttGGTTCATTATAGTTAattaaatgat gtaagcagttGGTTCATTATAGTTAattaaatgat	4100743	4100757	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	repressor	rhaTp	Sigma70	-173.0	-214.0	rhaT	gttcattataGTTAATTAAATGATAttgaaaatga gttcattataGTTAATTAAATGATAttgaaaatga	4100732	4100746	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	repressor	rhaTp	Sigma70	-156.0	-197.0	rhaT	aaatgatattGAAAATGATTATCAAtgccgtactt aaatgatattGAAAATGATTATCAAtgccgtactt	4100715	4100729	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	repressor	rmfp	nd	nd	nd	rmf	nd nd	nd	nd	[BPP], [CV(CHIP-SV/GEA/GS)], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/GS)], [CV(GEA/ROMA)], [GEA], [GS]	[64]
ArcA-Phosphorylated	repressor	rpoSp	Sigma70	-64.0	-631.0	rpoS	agagcaaggaGTTGTGATCAAGCCTgcacaaaatt agagcaaggaGTTGTGATCAAGCCTgcacaaaatt	2868175	2868189	[BPP], [GEA]	[65]
ArcA-Phosphorylated	repressor	rpoSp	Sigma70	24.0	-544.0	rpoS	tgaacagagtGCTAACAAAATGTTGccgaacaaca tgaacagagtGCTAACAAAATGTTGccgaacaaca	2868088	2868102	[BPP], [GEA]	[65]
ArcA-Phosphorylated	repressor	rpsJp	Sigma70	nd	nd	rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	repressor	rsdp2	Sigma70	nd	nd	rsd	nd nd	nd	nd	[BPP], [CV(CHIP-SV/GEA/GS)], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/GS)], [CV(GEA/ROMA)], [GEA], [GS]	[64]
ArcA-Phosphorylated	activator	rutAp	Sigma54	-97.0	-112.0	rutA, rutB, rutC, rutD, rutE, rutF, rutG	ctgttttgacCGTTTAGTCCACTTTttaccagata ctgttttgacCGTTTAGTCCACTTTttaccagata	1074116	1074130	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	activator	sdhCp	Sigma70	-211.0	-430.0	sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD, sdhX	tgttacataaGTTAATCTTAGGTGAaataccgact tgttacataaGTTAATCTTAGGTGAaataccgact	754740	754754	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[66]
ArcA-Phosphorylated	activator	sdhCp	Sigma70	-137.0	-356.0	sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD, sdhX	ttgtaacaacTTTGTTGAATGATTGtcaaattaga ttgtaacaacTTTGTTGAATGATTGtcaaattaga	754814	754828	[BPP], [GEA]	[66]
ArcA-Phosphorylated	repressor	sdhCp	Sigma70	-32.0	-251.0	sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD, sdhX	atgtaggttaATTGTAATGATTTTGtgaacagcct atgtaggttaATTGTAATGATTTTGtgaacagcct	754919	754933	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[11], [17]
ArcA-Phosphorylated	repressor	sdhCp	Sigma70	-27.0	-246.0	sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD, sdhX	ggttaattgtAATGATTTTGTGAACagcctatact agtataggctGTTCACAAAATCATTacaattaacc	754924	754938	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[11], [55], [66], [67]
ArcA-Phosphorylated	repressor	sdhCp	Sigma70	257.0	38.0	sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD, sdhX	acaaagacctGTTAATCTGGACCTAcagaccatcc acaaagacctGTTAATCTGGACCTAcagaccatcc	755207	755221	[BPP], [GEA]	[66]
ArcA-Phosphorylated	repressor	sodAp	Sigma70	-38.0	-89.0	sodA	aaagtacggcATTGATAATCATTTTcaatatcatt aaagtacggcATTGATAATCATTTTcaatatcatt	4100714	4100728	[BCE]	[15], [68]
ArcA-Phosphorylated	repressor	sodAp	Sigma70	-21.0	-72.0	sodA	atcattttcaATATCATTTAATTAActataatgaa ttcattatagTTAATTAAATGATATtgaaaatgat	4100731	4100745	[AIBSCS], [BCE]	[15], [68]
ArcA-Phosphorylated	repressor	sodAp	Sigma70	-10.0	-61.0	sodA	tatcatttaaTTAACTATAATGAACcaactgctta taagcagttgGTTCATTATAGTTAAttaaatgata	4100742	4100756	[APIORCISFBSCS], [BCE]	[68]
ArcA-Phosphorylated	repressor	ssbp1	Sigma70	-153.5	-186.5	ssb	ggcgatcacaAACGGTTAATTATGAcacaaattga ggcgatcacaAACGGTTAATTATGAcacaaattga	4273931	4273945	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp1	Sigma70	-90.5	-123.5	ssb	attacccggaGTGTTGTGTAACAATgtctggccag attacccggaGTGTTGTGTAACAATgtctggccag	4273994	4274008	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp1	Sigma70	-50.5	-83.5	ssb	tttcccggaaCCGAGGTCACAACATagtaaaagcg cgcttttactATGTTGTGACCTCGGttccgggaaa	4274034	4274048	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp1	Sigma70	-7.5	-40.5	ssb	aatggtacaaTCGCGCGTTTACACTtattcagaac gttctgaataAGTGTAAACGCGCGAttgtaccatt	4274077	4274091	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp2	Sigma70	-141.5	-186.5	ssb	ggcgatcacaAACGGTTAATTATGAcacaaattga ggcgatcacaAACGGTTAATTATGAcacaaattga	4273931	4273945	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp2	Sigma70	-78.5	-123.5	ssb	attacccggaGTGTTGTGTAACAATgtctggccag attacccggaGTGTTGTGTAACAATgtctggccag	4273994	4274008	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp2	Sigma70	-38.5	-83.5	ssb	tttcccggaaCCGAGGTCACAACATagtaaaagcg cgcttttactATGTTGTGACCTCGGttccgggaaa	4274034	4274048	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp2	Sigma70	5.5	-40.5	ssb	aatggtacaaTCGCGCGTTTACACTtattcagaac gttctgaataAGTGTAAACGCGCGAttgtaccatt	4274077	4274091	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp3	Sigma70	-72.5	-186.5	ssb	ggcgatcacaAACGGTTAATTATGAcacaaattga ggcgatcacaAACGGTTAATTATGAcacaaattga	4273931	4273945	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp3	Sigma70	-9.5	-123.5	ssb	attacccggaGTGTTGTGTAACAATgtctggccag attacccggaGTGTTGTGTAACAATgtctggccag	4273994	4274008	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp3	Sigma70	31.5	-83.5	ssb	tttcccggaaCCGAGGTCACAACATagtaaaagcg cgcttttactATGTTGTGACCTCGGttccgggaaa	4274034	4274048	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	ssbp3	Sigma70	74.5	-40.5	ssb	aatggtacaaTCGCGCGTTTACACTtattcagaac gttctgaataAGTGTAAACGCGCGAttgtaccatt	4274077	4274091	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	sucAp	Sigma38	nd	nd	sucA, sucB, sucC, sucD	nd nd	nd	nd	[BPP], [GEA]	[17], [29], [70]
ArcA-Phosphorylated	repressor	tpxp	Sigma70	-22.0	-55.0	tpx	cgtttgctgtGTTATTGACAGTTAGcataaactag cgtttgctgtGTTATTGACAGTTAGcataaactag	1388859	1388873	[APIORCISFBSCS], [CV(GEA/ROMA)], [GEA]	[71]
ArcA-Phosphorylated	activator	treBp	Sigma70	-237.0	-267.0	treB, treC	ggcgagcgtcGGTAATACGCCGTTAatgaaattcc ggcgagcgtcGGTAATACGCCGTTAatgaaattcc	4466440	4466454	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]
ArcA-Phosphorylated	repressor	ubiCp	Sigma70	nd	nd	ubiC, ubiA	nd nd	nd	nd	[GEA]	[72]
ArcA-Phosphorylated	repressor	uvrAp	Sigma70	-148.5	-213.5	uvrA	gttctgaataAGTGTAAACGCGCGAttgtaccatt gttctgaataAGTGTAAACGCGCGAttgtaccatt	4274077	4274091	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	uvrAp	Sigma70	-105.5	-170.5	uvrA	cgcttttactATGTTGTGACCTCGGttccgggaaa cgcttttactATGTTGTGACCTCGGttccgggaaa	4274034	4274048	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	uvrAp	Sigma70	-65.5	-130.5	uvrA	ctggccagacATTGTTACACAACACtccgggtaat attacccggaGTGTTGTGTAACAATgtctggccag	4273994	4274008	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	repressor	uvrAp	Sigma70	-2.5	-67.5	uvrA	tcaatttgtgTCATAATTAACCGTTtgtgatcgcc ggcgatcacaAACGGTTAATTATGAcacaaattga	4273931	4273945	[APIORCISFBSCS], [BPP], [CV(CHIP-SV/GEA/ROMA)], [CV(GEA/ROMA)], [GEA]	[69]
ArcA-Phosphorylated	activator	xylRp	nd	nd	nd	xylR	nd nd	nd	nd	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[28]
ArcA-Phosphorylated	activator	ybdNp	Sigma70	64.5	-53.5	ybdN	acagtgtttaCTTTATAATTAACAGacttatctca tgagataagtCTGTTAATTATAAAGtaaacactgt	636615	636629	[AIBSCS]	[53]
ArcA-Phosphorylated	repressor	ydeAp	nd	16.0	-58.0	ydeA	aatgcattgtATTCACATCATTAACcgttttaaga tcttaaaacgGTTAATGATGTGAATacaatgcatt	1616963	1616977	[AIBSCS], [CV(GEA/ROMA)], [GEA]	[15]

	Sequence
	gcttgttcaaGTTAAATATTTCCGCgcatcgatta	[-340.0, dcuCp, reverse]
	ccctgggtgaGTTAATTATAATATAattataagtt	[-315.0, cydAp1, forward]
	ttaattataaTATAATTATAAGTTAactaaatgtt	[-304.0, cydAp1, forward]
	ataattataaGTTAACTAAATGTTAatattggcgg	[-293.0, cydAp1, forward]
	tataaggttaAATATCGGTAATTTGtatttaataa	[-251.0, focAp1, reverse]
	ggcgagcgtcGGTAATACGCCGTTAatgaaattcc	[-237.0, treBp, reverse]
	tgttacataaGTTAATCTTAGGTGAaataccgact	[-211.0, sdhCp, forward]
	ataattatttGTTAAATAATTGTTTtatttcacat	[-200.0, cyoAp, reverse]
	agtgagtttaTGTTAATAAAAagcatagtaa	[-197.0, appYp2, forward]
	gtaagcagttGGTTCATTATAGTTAattaaatgat	[-184.0, rhaTp, reverse]
	ataatttttaTTACATAAATTTAACcagagaatgt	[-179.0, cadBp, reverse]
	gttcattataGTTAATTAAATGATAttgaaaatga	[-173.0, rhaTp, reverse]
	ataaaggctaTGTTTTAATTACAGGatgttcagtc	[-170.5, iraMp, reverse]
	gaggcggtagTTTAAATTTTGACTAatcttgggat	[-170.0, acnBp, forward]
	gagcatggaaAATATAATGAACAATccggttatcg	[-165.0, puuAp, reverse] [82.0, puuDp, forward]
	aaagtcgctcGTTACGTTAAAAATTgcccgtttgt	[-157.0, aldAp, forward]
	aaatgatattGAAAATGATTATCAAtgccgtactt	[-156.0, rhaTp, reverse]
	ggcgatcacaAACGGTTAATTATGAcacaaattga	[-153.5, ssbp1, forward] [-141.5, ssbp2, forward] [-72.5, ssbp3, forward] [-2.5, uvrAp, reverse]
	aatggtacaaTCGCGCGTTTACACTtattcagaac	[-7.5, ssbp1, forward] [5.5, ssbp2, forward] [74.5, ssbp3, forward] [-148.5, uvrAp, reverse]
	cttgggattcGTTGAGAAAGGTGATtatcaccatg	[-143.0, acnBp, forward]
	ggattcgttgAGAAAGGTGATTATCaccatgcgaa	[-139.0, acnBp, forward]
	aaattgcccgTTTGTGAACCACTTGtttgcaaacg	[-137.0, aldAp, forward]
	tggttcgccaCTTTTGCTATAAATAtcagaatttt	[-137.0, moeAp, reverse]
	ttgtaacaacTTTGTTGAATGATTGtcaaattaga	[-137.0, sdhCp, forward]
	ttatcaccatGCGAATTAACGAAGTttttacggag	[-119.0, acnBp, forward]
	tttatttttaTTTGGATAATCAAATatttactccg	[-114.0, focAp1, reverse]
	ccatgcgaatTAACGAAGTTTTTACggagggaaac	[-113.0, acnBp, forward]
	aagtgattatGTTACATCAATTTAAcattgagtta	[-111.0, glcDp, reverse]
	tgctaatggtGTTGATATTATGTAAactaatgtga	[-108.0, nuoAp2, reverse]
	tttcccggaaCCGAGGTCACAACATagtaaaagcg	[-50.5, ssbp1, forward] [-38.5, ssbp2, forward] [31.5, ssbp3, forward] [-105.5, uvrAp, reverse]
	tatgttacatCAATTTAACATTGAGttaaccaaga	[-104.0, glcDp, reverse]
	cagagcataaCAAACTGATTATTAAtcaaaattaa	[-101.0, caiTp, reverse]
	ttcacacccgCATAAGTTGATGTAAaacaataaaa	[-99.0, grcAp1, reverse]
	ctgttttgacCGTTTAGTCCACTTTttaccagata	[-97.0, rutAp, reverse]
	aggtgcatgtTGTTATCGATTtgcaacgaat	[64.5, citCp1, reverse] [-95.5, dpiBp, forward]
	caaactgattATTAATCAAAATTAAcgaaaaaacg	[-91.0, caiTp, reverse]
	attacccggaGTGTTGTGTAACAATgtctggccag	[-90.5, ssbp1, forward] [-78.5, ssbp2, forward] [-9.5, ssbp3, forward] [-65.5, uvrAp, reverse]
	tgtgacatatGTTTTGTCAAAATGTgcaacttctc	[-85.0, ptsGp1, forward]
	aagttaccttATTGAAACATGATTAacataatttg	[-84.0, cydAp1, forward]
	tgatgtaaaaCAATAAAATCCATTTgcgaccatac	[-82.0, grcAp1, reverse]
	cggtaatttaGCTATAAATTGATCAccgtcgaaaa	[-77.5, cydAp2, forward]
	tacgaatttgATTTTAAATAGTAACaataacagtg	[-74.0, betIp, reverse] [15.0, betTp, forward]
	aaaaataggtCCATTTTTATCGCTAaaagataaat	[-67.0, hyaAp, forward]
	agagcaaggaGTTGTGATCAAGCCTgcacaaaatt	[-64.0, rpoSp, reverse]
	gattcagccaCTTTTTTATGTTGCTtttttgtaaa	[-57.0, acnBp, forward]
	cttttcagcaACAAAACTTGATTAAcatcaatttt	[-57.0, ndhp, forward]
	attatcttgcTTTAATTAATTACACtaatgcttct	[-57.0, hybOp1, reverse]
	acttttttatGTTGCTTTTTTGTAAacagattaac	[-48.0, acnBp, forward]
	atgatctgaaGTTGAAACGTGATAG