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FNR DNA-binding transcriptional dual regulator

Synonyms: FNR, FNR-[4Fe-4S]2+ reduced, FNR-[2Fe-2S]2+ oxidized
Summary:
FNR is the primary transcriptional regulator that mediates the transition from aerobic to anaerobic growth through the regulation of hundreds of genes. Generally, this protein activates genes involved in anaerobic metabolism and represses genes involved in aerobic metabolism [8, 97]. FNR also regulates the transcription of many genes with other functions, such as acid resistance, chemotaxis, cell structure, and molecular biosynthesis, among others [8, 97]. The cellular concentration of FNR is similar under both anaerobic and aerobic growth [], but its activity is regulated directly by oxygen. Under anaerobiosis, FNR acquires a [4Fe-4S] cluster that causes a conformational change and dimerization of the protein that causes it to become activated []. Purification of [4Fe-4S]-FNR in an O2-free environment has been described [].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
FNR Functional   [APPHINH], [HIFS] [1], [2], [3], [4]
FNR-[2Fe-2S]2+ oxidized Non-Functional Covalent Apo nd nd
FNR-[4Fe-4S]2+ reduced Functional Covalent Holo nd nd
Evolutionary Family: CRP
Sensing class: Using internal synthesized signals
Connectivity class: Global Regulator
Gene name: fnr
  Genome position: 1398774-1399526
  Length: 753 bp / 250 aa
Operon name: fnr
TU(s) encoding the TF:
Transcription unit        Promoter
fnr
fnrp


Regulon       
Regulated gene(s) aceE, aceF, ackA, acnA, acrE, acrF, adhE, aer, aldA, amtB, ansB, arcA, aspA, aspC, bcsB, bcsZ, cadC, caiA, caiB, caiC, caiD, caiE, caiF, caiT, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH, ccp, cheB, cheR, cheY, cheZ, citC, citD, citE, citF, citG, citX, cydA, cydB, cydC, cydD, cyoA, cyoB, cyoC, cyoD, cyoE, cysG, dcuA, dcuB, dcuC, dcuR, dcuS, dmsA, dmsB, dmsC, dmsD, dpiA, dpiB, dppA,
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Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
membrane (79)
anaerobic respiration (67)
aerobic respiration (27)
electron donors (26)
electron acceptors (24)
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Regulated operon(s) ackA-pta, acnA, acrEF, adhE, aer, aldA, ansB, arcA, aspA-dcuA, aspC, bcsABZC, cadC, caiF, caiTABCDE, ccp, citCDEFXG, cydAB, cydDC, cyoABCDE, dcuB-fumB, dcuC, dcuSR, dmsABC, dpiBA, dppABCDF, emrKY, fdhF, fdnGHI, feoABC, fes-ybdZ-entF-fepE, fixABCX, fnr, fnrS, focA-pflB, frdABCD, fumAC, gadAXW, garPLRK-rnpB, gcvTHP, gdhA, glnK-amtB, glpABC, glpTQ, gltBDF, gnd, grcA, hcp-hcr-poxB-ltaE-ybjT, hemA-prfA-prmC, hlyE, hmp, hyfABCDEFGHIJR-focB, hypABCDE-fhlA, iraM, katG, malPQ, map-glnD-dapD, moaABCDE, moeAB, nac, napFDAGHBC-ccmABCDEFGH, narGHJI, narK, narXL, ndh, nikABCDER,
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First gene in the operon(s) aceE, ackA, acnA, acrE, adhE, aer, aldA, ansB, arcA, arcA, aspA, aspA, aspC, bcsB, cadC, caiF, caiT, ccp, citC, cydA, cydA, cydA, cydA, cydD, cyoA, dcuB, dcuC, dcuS, dmsA, dpiB, dppA, emrK, fdhF, fdnG, feoA, fes, fixA, fnr, fnrS, focA, focA, frdA, fumA, fumA, fumB, fumC, gadA, gadX, gadX, garP, gcvT, gdhA, glnD, glnK, glpA, glpT, gltB, gnd, grcA, hcp, hcp, hemA, hlyE, hmp, hyfA,
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Simple and complex regulons AcrR,FNR,Fur,SoxR
AcrR,FNR,Fur,SoxR,SoxS
AdiY,ArcA,CRP,FNR,Fis,GadE-RcsB,GadW,GadX,H-NS,RcsB,TorR
AdiY,ArgR,CRP,FNR,Fur,GadE,HdfR,IHF,Lrp,Nac
ArcA,CRP,CaiF,FNR,H-NS
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Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[FNR,+-](3)
[FNR,+](48)
[FNR,-](31)


Transcription factor regulation    


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
  FNR repressor aceEp Sigma70, Sigma38 nd -123017.0 aceE, aceF nd nd [GEA] [5], [6]
  FNR activator ackAp Sigma32 nd -2413470.0 ackA nd nd [GEA] [6]
  FNR repressor acnAp2 Sigma70 -40.5 -90.5 acnA
tttatcaattTGGGTTGTTATCAAatcgttacgc
1335734 1335747 [GEA], [HIBSCS] [7]
  FNR activator acrEp Sigma70 nd -3413864.0 acrE, acrF nd nd [AIBSCS], [GEA] [8]
  FNR activator adhEp2 Sigma38 -42.5 -230.5 adhE
tactgattacGTGATCCAAATCAAatttttgcaa
1298345 1298358 [GEA], [HIBSCS] [9]
  FNR activator aerp Sigma28 -49.5 -93.5 aer
accgattaatTTGATTTAGATCGCaatttgcgat
3219163 3219176 [AIBSCS], [GEA] [10]
  FNR repressor aldAp Sigma70 -10.5 -52.5 aldA
tctctgatgaTTGATGTTAATTAAcaatgtattc
1488173 1488186 [AIBSCS], [GEA] [10]
  FNR activator ansBp2 Sigma70 -41.5 -64.5 ansB
tatgggaaatTTGACGTTAAACAAtttacaacgt
3100786 3100799 [BCE], [SM] [11]
  FNR activator arcAp1 Sigma70 -82.5 -284.5 arcA
ctacgcttcgTTGACATATATCAAgttcaattgt
4640584 4640597 [GEA], [HIBSCS] [12], [13]
  FNR repressor arcAp3 Sigma70 -55.5 -284.5 arcA
ctacgcttcgTTGACATATATCAAgttcaattgt
4640584 4640597 [GEA], [HIBSCS] [12], [13]
  FNR activator aspAp Sigma70 -40.5 -145.5 aspA, dcuA
gatttctaccGTAATCTGGATCACtttaagtgtc
4368466 4368479 [GEA], [HIBSCS] [14], [15]
  FNR dual aspCp nd nd 985709.0 aspC nd nd [GEA] [13]
  FNR dual aspCp nd nd 985709.0 aspC nd nd [GEA] [13]
  FNR activator bcsBp Sigma70 nd 3692607.0 bcsB, bcsZ nd nd [AIBSCS], [GEA] [8]
  FNR activator cadCp Sigma70 -156.5 -185.5 cadC
agaagtaataTTCCTTACCATCAAaattcatcat
4362113 4362126 [AIBSCS], [GEA] [10]
  FNR activator caiFp Sigma70 -55.5 -137.5 caiF
atcgatatttTTGATGACATAAGCaggatttagc
34156 34169 [BCE], [GEA] [16]
  FNR activator caiTp Sigma70 -90.5 -196.5 caiT, caiA, caiB, caiC, caiD, caiE
cgttttttcgTTAATTTTGATTAAtaatcagttt
42121 42134 [AIBSCS], [GEA] [8], [10]
  FNR activator caiTp Sigma70 -41.5 -147.5 caiT, caiA, caiB, caiC, caiD, caiE
gctgtattctGTGATTGGTATCACatttttgttt
42072 42085 [AIBSCS], [GEA] [8], [10]
  FNR repressor citCp2 nd 11.5 -172.5 citC, citD, citE, citF, citX, citG
gcgtgaaattTTGATTTATTTCACatagagttag
652022 652035 [AIBSCS] [17]
  FNR repressor cydAp1 Sigma70 -53.5 -341.5 cydA, cydB
tttgtaggaaTTGATATTTATCAAtgtataagtc
771110 771123 [AIBSCS], [BPP], [GEA] [8], [18], [19], [20], [21], [22], [23]
  FNR repressor cydAp1 Sigma70 -1.5 -289.5 cydA, cydB
aagagataaaTTGTTCTCGATCAAattggctgaa
771162 771175 [BPP], [GEA], [HIBSCS] [8], [18], [19], [21], [22], [23], [24]
  FNR activator cydAp2 Sigma70 -167.5 -341.5 cydA, cydB
tttgtaggaaTTGATATTTATCAAtgtataagtc
771110 771123 [AIBSCS], [BPP], [GEA] [8], [21], [22], [23]
  FNR repressor cydAp2 Sigma70 -115.5 -289.5 cydA, cydB
aagagataaaTTGTTCTCGATCAAattggctgaa
771162 771175 [BPP], [GEA], [HIBSCS] [8], [21], [22], [23], [24]
  FNR repressor cydAp3 Sigma70 -85.5 -341.5 cydA, cydB
tttgtaggaaTTGATATTTATCAAtgtataagtc
771110 771123 [AIBSCS], [BPP], [GEA] [8], [21], [22], [23]
  FNR repressor cydAp3 Sigma70 -33.5 -289.5 cydA, cydB
aagagataaaTTGTTCTCGATCAAattggctgaa
771162 771175 [BPP], [GEA], [HIBSCS] [8], [21], [22], [23], [24]
  FNR repressor cydAp4 Sigma70 -96.5 -341.5 cydA, cydB
tttgtaggaaTTGATATTTATCAAtgtataagtc
771110 771123 [AIBSCS], [BPP], [GEA] [8], [21], [22], [23]
  FNR repressor cydAp4 Sigma70 -44.5 -289.5 cydA, cydB
aagagataaaTTGTTCTCGATCAAattggctgaa
771162 771175 [BPP], [GEA], [HIBSCS] [8], [21], [22], [23], [24]
  FNR activator cydDp Sigma70 -90.5 -159.5 cydD, cydC
catcgaggtaGCGTTCCGCATCAAgtgctgccat
931115 931128 [GEA], [HIBSCS] [25]
  FNR repressor cyoAp Sigma70 -192.5 -235.5 cyoA, cyoB, cyoC, cyoD, cyoE
ataaccaatgTGAAATAAAACAATtatttaacaa
451839 451852 [AIBSCS], [GEA] [8], [10], [13], [15], [18]
  FNR activator dcuBp Sigma70 -45.5 -65.5 dcuB, fumB
cagtcacgttCTGTTTTGTATGAActgttttcag
4348803 4348816 [GEA], [HIBSCS] [14], [26]
  FNR activator dcuCp nd -115.5 -230.5 dcuC
ttgatgcaaaTTTGTTAATTGCAAtggtgttagc
656192 656205 [GEA], [HIBSCS] [27]
  FNR activator dcuCp nd -63.5 -178.5 dcuC
tatttagcggTTGGCAATTATCACataataatgt
656140 656153 [GEA], [HIBSCS] [27]
  FNR activator dcuCp nd -33.5 -148.5 dcuC
gctgtttttaTACATAGATAACAAaacgcatatt
656110 656123 [GEA], [HIBSCS] [27]
  FNR activator dcuSp Sigma70 nd 4351662.0 dcuS, dcuR nd nd [AIBSCS], [GEA] [8]
  FNR activator dmsAp1 Sigma70 -41.5 -177.5 dmsA, dmsB, dmsC
ttgtctccctTTGATACCGAACAAtaattactcc
940775 940788 [BCE], [BPP], [GEA], [SM] [28], [29], [30], [31]
  FNR repressor dpiBp nd 45.5 -206.5 dpiB, dpiA
ctaactctatGTGAAATAAATCAAaatttcacgc
652022 652035 [AIBSCS] [17]
  FNR repressor dppAp Sigma70 -162.5 -327.5 dppA, dppB, dppC, dppD, dppF
aacaatcagcTTAATATTTAGCAAcatttggtga
3708026 3708039 [AIBSCS], [GEA] [10]
  FNR activator emrKp nd nd 2483339.0 emrK, emrY nd nd [AIBSCS], [GEA] [8]
  FNR activator fdhFp Sigma54 nd 4299366.0 fdhF nd nd [GEA] [8]
  FNR dual fdnGp Sigma70 -97.5 -126.5 fdnG, fdnH, fdnI
tctaccgctaTTGAGGTAGGTCAAtttgcgaagg
1547268 1547281 [GEA], [HIBSCS], [SM] [32]
  FNR dual fdnGp Sigma70 -97.5 -126.5 fdnG, fdnH, fdnI
tctaccgctaTTGAGGTAGGTCAAtttgcgaagg
1547268 1547281 [GEA], [HIBSCS], [SM] [32]
  FNR activator fdnGp Sigma70 -42.5 -71.5 fdnG, fdnH, fdnI
gatgttctttTTGATTTCGCGCAAaaagattcag
1547323 1547336 [GEA], [HIBSCS], [SM] [15], [32]
  FNR activator feoAp Sigma70 -90.5 -196.0 feoA, feoB, feoC
gctgcgatatAACCTTGAGCCACATCAACATTgagtcagatt
3539956 3539978 [GEA], [HIBSCS] [33]
  FNR activator fesp Sigma70 -143.5 -193.5 fes, ybdZ, entF, fepE
aactgtcgggCATGGTCGTCATCAacacgacgca
612537 612550 [AIBSCS], [GEA] [10]
  FNR activator fixAp Sigma70 -197.5 -275.5 fixA, fixB, fixC, fixX
aaactgattaTTAATCAAAATTAAcgaaaaaacg
42121 42134 [AIBSCS], [GEA] [8], [10]
  FNR activator fnrSp Sigma70 -42.5 -42.5 fnrS
gccgcaaagtTTGAGCGAAGTCAAtaaactctct
1409080 1409093 [BPP], [GEA], [HIBSCS] [34]
  FNR repressor fnrp Sigma70 -0.5 -26.5 fnr
caagccgtaaTTGATATTTGTCAAttttaacatc
1399546 1399559 [BCE], [BPP], [GEA], [HIBSCS] [1], [3]
  FNR activator focAp1 Sigma70 -40.5 -67.5 focA, pflB
agatgagaaaTTGATATAGATCATatctcgcctg
954527 954540 [BCE], [GEA], [HIBSCS], [SM] [35], [36], [37], [38], [39], [40]
  FNR activator focAp3 Sigma70 -58.5 -406.5 focA, pflB
cgtaggctatTTGATTTTATTTTGcccagaatgc
954866 954879 [BCE], [GEA], [SM] [6], [36], [37], [38], [39], [40]
  FNR activator frdAp Sigma70, Sigma38 -45.5 -139.5 frdA, frdB, frdC, frdD
aagtctgaaaTTTGACGAGATCGAtttttttagt
4382451 4382464 [BCE], [GEA] [6], [26], [31], [41]
  FNR repressor fumAp Sigma70 nd 1688377.0 fumA, fumC nd nd [GEA] [42]
  FNR activator fumBp Sigma70 -114.5 -136.5 fumB
gcacgatacgCTCACACCAATCAAccccggcaga
4347456 4347469 [BCE], [GEA] [15], [43], [44]
  FNR activator fumBp Sigma70 -61.5 -83.5 fumB
gcaaagtgcaTTTATAAGAACCCGtacatcgcgg
4347403 4347416 [BCE], [GEA] [43], [44]
  FNR activator fumBp Sigma70 -57.5 -79.5 fumB
gcacgcaaagTGCATTTATAAGAAcccgtacatc
4347399 4347412 [BCE], [GEA] [43], [44]
  FNR repressor fumCp Sigma38 nd 1686588.0 fumC nd nd [GEA] [13]
  FNR repressor gadAp Sigma38, Sigma70, Sigma38, Sigma70 11.5 -16.5 gadA, gadX
tttcgaactcCTTAAATTTATTTGaaggcaataa
3667590 3667603 [AIBSCS], [GEA] [10]
  FNR repressor gadXp Sigma38 -159.5 -188.5 gadX, gadW
cacagggaaaTTAATAGTAAGCAAataatccctt
3665992 3666005 [AIBSCS], [GEA] [10]
  FNR activator garPp Sigma70 nd 3274907.0 garP, garL, garR, garK, rnpB nd nd [AIBSCS], [GEA] [10]
  FNR activator gcvTp Sigma70 nd 3050667.0 gcvT, gcvH, gcvP nd nd [AIBSCS], [GEA] [8]
  FNR activator gdhAp1 Sigma70 nd -1842371.0 gdhA nd nd [GEA] [13]
  FNR dual glnDp nd nd 188650.0 glnD nd nd [GEA] [13]
  FNR dual glnDp nd nd 188650.0 glnD nd nd [GEA] [13]
  FNR dual glnKp Sigma54 nd -472598.0 glnK, amtB nd nd [GEA] [13]
  FNR dual glnKp Sigma54 nd -472598.0 glnK, amtB nd nd [GEA] [13]
  FNR activator glpABCp Sigma70 -40.5 -104.5 glpA, glpB, glpC
aaagtgaaacGTGATTTCATGCGTcattttgaac
2352536 2352549 [AIBSCS], [GEA] [45], [46], [47], [48]
  FNR activator glpABCp Sigma70 -0.5 -64.5 glpA, glpB, glpC
catgaattgtTTGATTTCGCGCATattcgctcat
2352576 2352589 [GEA], [HIBSCS] [45], [46], [47], [48]
  FNR activator glpTQp Sigma70 -131.5 -208.5 glpT, glpQ
atgagcgaatATGCGCGAAATCAAacaattcatg
2352576 2352589 [GEA], [HIBSCS] [46], [47], [48]
  FNR activator glpTQp Sigma70 -91.5 -168.5 glpT, glpQ
gttcaaaatgACGCATGAAATCACgtttcacttt
2352536 2352549 [AIBSCS], [GEA] [46], [47], [48]
  FNR repressor gltBp Sigma70 -26.5 -242.5 gltB, gltD, gltF
agcttgccatTTGACCTGTATCAGctttcccgat
3354476 3354489 [AIBSCS], [GEA] [10], [13]
  FNR repressor gndp Sigma70 nd 2101268.0 gnd nd nd [GEA] [13]
  FNR repressor grcAp1 Sigma70 -93.5 -167.5 grcA
atggattttaTTGTTTTACATCAActtatgcggg
2716610 2716623 [BPP], [GEA], [SM] [13], [49], [50], [51]
  FNR dual grcAp1 Sigma70 -40.5 -114.5 grcA
ccttgaatctTTGATTTAAATCAAtaaaaaccac
2716557 2716570 [BPP], [GEA], [SM] [6], [49], [50], [51]
  FNR dual grcAp1 Sigma70 -40.5 -114.5 grcA
ccttgaatctTTGATTTAAATCAAtaaaaaccac
2716557 2716570 [BPP], [GEA], [SM] [6], [49], [50], [51]
  FNR activator hcpp nd -72.5 -103.5 hcp, hcr, poxB
ttaagggagaTTGATTTAGCGCAAttttggcggc
913911 913924 [BPP], [GEA], [HIBSCS], [SM] [52], [53], [54]
  FNR repressor hemAp1 Sigma70 -24.5 -62.5 hemA, prfA, prmC
ctctcttttaTTGATCTTACGCATcctgtatgat
1263645 1263658 [BPP], [GEA] [30], [55], [56]
  FNR activator hlyEp nd -61.5 -133.5 hlyE
ttctattaatATGATAAATATCAAacaatgttta
1230521 1230534 [BPP], [GEA] [57], [58]
  FNR repressor hmpAp Sigma38 5.5 -33.5 hmp
taagatgcatTTGAGATACATCAAttaagatgca
2685795 2685808 [BPP], [GEA], [HIBSCS], [SM] [59], [60], [61]
  FNR repressor hyfAp Sigma54 -105.5 -135.5 hyfA, hyfB, hyfC, hyfD, hyfE, hyfF, hyfG, hyfH, hyfI, hyfJ, hyfR, focB
aatccattttTTGCTGAACGTTAAtgaccatcat
2601059 2601072 [GEA], [HIBSCS] [62]
  FNR activator hypBp nd -149.5 -311.5 hypB, hypC, hypD, hypE, fhlA
ggcactggaaTTGATCGAACAGCAggccgcaaaa
2850683 2850696 [BPP], [GEA] [63]
  FNR activator hypBp nd -43.5 -205.5 hypB, hypC, hypD, hypE, fhlA
gccttttgttTTGATCTGGTTTGCcgcggcagcg
2850789 2850802 [BCE], [BPP], [GEA] [63]
  FNR activator iraDp2 Sigma38, Sigma70 nd -4556913.0 idlP, iraD nd nd [AIBSCS], [GEA] [10]
  FNR activator iraMp nd -70.5 -157.5 iraM
ggaatctcaaTGGATGTTAAACAAaatgagattt
1212154 1212167 [AIBSCS] [64]
  FNR activator katGp Sigma70 -112.5 -135.5 katG
atcaaaaaagCTTAATTAAGATCAatttgatcta
4133693 4133706 [AIBSCS], [GEA] [10]
  FNR activator katGp Sigma70 -96.5 -119.5 katG
taagatcaatTTGATCTACATCTCtttaaccaac
4133709 4133722 [AIBSCS], [GEA] [10]
  FNR dual lpdAp Sigma70 nd -127912.0 lpd nd nd [AIBSCS], [GEA] [8], [13]
  FNR dual lpdAp Sigma70 nd -127912.0 lpd nd nd [AIBSCS], [GEA] [8], [13]
  FNR activator malPp Sigma70 -127.5 -164.5 malP, malQ
tgcaaaccacAGGATTAGCATCAAatcaatgcaa
3552631 3552644 [AIBSCS], [GEA] [10]
  FNR activator moaAp1 nd -39.5 -256.5 moaA, moaB, moaC, moaD, moaE
tgcctccctgATGATGTATATCAAagtaaaaccg
816781 816794 [GEA], [HIBSCS] [65]
  FNR repressor moeAp Sigma70 34.5 3.5 moeA, moeB
caatccggtgGTAAATTCCATGAAaacactcctg
866354 866367 [BPP], [GEA] [66]
  FNR repressor nacp Sigma54 nd 2061933.0 nac nd nd [GEA] [13]
  FNR activator napFp1 Sigma70 -64.5 -141.5 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
gggtaaaaccTGTAGCAGGATCAAaagagtggcg
2303632 2303645 [GEA], [HIBSCS], [SM] [67], [68]
  FNR activator narGp Sigma70 -41.5 -98.5 narG, narH, narJ, narI
cccatcactcTTGATCGTTATCAAttcccacgct
1279759 1279772 [BPP], [GEA], [HIBSCS], [SM] [1], [29], [30], [69]
  FNR activator narKp1 Sigma70 -79.5 -104.5 narK
actatgggtaATGATAAATATCAAtgatagataa
1277846 1277859 [BCE], [GEA], [SM] [70]
  FNR activator narKp1 Sigma70 -41.5 -66.5 narK
atcttatcgtTTGATTTACATCAAattgccttta
1277884 1277897 [BCE], [BPP], [SM] [30], [71]
  FNR repressor narXp Sigma70 -106.5 -265.5 narX, narL
taaagttatcTTATCGTTTGATTTacatcaaatt
1277877 1277890 [BCE], [HIBSCS] [4], [72]
  FNR repressor narXp Sigma70 -75.0 -233.5 narX, narL
cactatgggtAATGATAAATATCAatgatagata
1277845 1277858 [BPP], [HIBSCS] [4]
  FNR repressor narXp Sigma70 107.5 -52.5 narX, narL
accttaatgaATGTGACGATACATtctggaatgg
1277664 1277677 [BCE], [HIBSCS] [4]
  FNR repressor ndhp Sigma70 -94.5 -187.5 ndh
actctgttttTTGATCTCACCCGGtaaagtcgcc
1165891 1165904 [BCE], [GEA], [SM] [8], [13], [73], [74]
  FNR repressor ndhp Sigma70 -50.5 -143.5 ndh
gcaacaaaacTTGATTAACATCAAttttggtatg
1165935 1165948 [BCE], [GEA], [SM] [8], [13], [73], [74]
  FNR activator nikAp1 nd -40.5 -79.0 nikA, nikB, nikC, nikD, nikE, nikR
tgcccatctaTTGATCCAGAACAGgtaatcagta
3613581 3613595 [GEA], [HIBSCS], [SM] [75], [76]
  FNR activator nirBp Sigma70 -41.5 -65.5 nirB, nirD, nirC, cysG
aaaggtgaatTTGATTTACATCAAtaagcggggt
3493939 3493952 [BPP], [GEA], [HIBSCS], [SM] [1], [31], [77], [78], [79]
  FNR repressor norVp Sigma54 -140.5 -177.5 norV, norW
aaactcatctTTGCCTCACTGTCAatttgactat
2832292 2832305 [GEA], [HIBSCS] [80]
  FNR activator nrdDp Sigma70 -64.5 -242.5 nrdD, nrdG
tgagctttttTTGATGTAGCTCAAagtaaaaagc
4462896 4462909 [BPP], [GEA], [HIBSCS], [SM] [81], [82]
  FNR activator nrdDp Sigma70 -33.5 -211.5 nrdD, nrdG
tctatatataGTGCTTTGCATCAAggatgtttga
4462865 4462878 [BPP], [GEA], [HIBSCS], [SM] [81], [82]
  FNR activator nrfAp Sigma70 -41.5 -134.5 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
gcacttacaaTTGATTAAAGACAAcattcacagt
4287623 4287636 [BCE], [BPP], [GEA] [83], [84]
  FNR repressor nuoAp2 Sigma70 -40.5 -130.5 nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN
atacagctaaTTGATGTGGTTTTTtactcctttc
2405196 2405209 [BCE], [GEA], [SM] [8], [13], [85]
  FNR repressor ompWp nd -126.5 -155.5 ompW
tatttaaaaaTTGATTTAAATCACattaaccagg
1313858 1313871 [AIBSCS], [BPP], [GEA] [86], [87]
  FNR activator ompWp nd -81.5 -110.5 ompW
aacttctaaaTTAATCCAGATCAAtaaagggtga
1313903 1313916 [AIBSCS], [BPP], [GEA], [HIBSCS] [10], [87]
  FNR repressor ompXp2 nd nd -850450.0 ompX nd nd [AIBSCS], [GEA] [10]
  FNR dual pdhRp Sigma70, Sigma38 -50.5 -108.5 pdhR, aceE, aceF, lpd
gcacagtttcATGATTTCAATCAAaacctgtatg
121977 121990 [AIBSCS], [BCE], [GEA] [5], [8], [10]
  FNR dual pdhRp Sigma70, Sigma38 -50.5 -108.5 pdhR, aceE, aceF, lpd
gcacagtttcATGATTTCAATCAAaacctgtatg
121977 121990 [AIBSCS], [BCE], [GEA] [5], [8], [10]
  FNR activator pepTp nd nd -1185844.0 pepT nd nd [AIBSCS], [GEA] [10]
  FNR activator pitAp nd nd -3637642.0 pitA nd nd [AIBSCS], [GEA] [10]
  FNR activator pstSp Sigma70, Sigma38 nd 3911525.0 pstS, pstC, pstA, pstB, phoU nd nd [AIBSCS], [GEA] [8]
  FNR repressor purMp Sigma70 -192.5 -236.5 purM, purN
attcttttcgTTGACTTTAGTCAAaatgataacg
2620954 2620967 [AIBSCS], [GEA], [HIBSCS], [SM] [8], [88]
  FNR repressor puuAp Sigma38 29.0 -31.5 puuA, puuP
ggtttgttttCCGCTCGTTATCAAagcgtaaaat
1360933 1360946 [AIBSCS], [GEA] [64]
  FNR activator ravAp Sigma38 -201.5 -236.5 ravA, viaA
tctatgagcaCTGATAATAAGCAAtcattgcccg
3931323 3931336 [BPP], [GEA], [HIBSCS], [SM] [89]
  FNR activator ravAp Sigma38 -71.5 -106.5 ravA, viaA
gtatttttctTTGAGCCAGGTTAAtgtggccgca
3931193 3931206 [BPP], [GEA], [HIBSCS], [SM] [89]
  FNR repressor rplMp Sigma70 nd 3378651.0 rplM, rpsI nd nd [AIBSCS], [GEA] [8]
  FNR repressor rplTp nd nd 1799749.0 rplT, pheM nd nd [GEA] [8]
  FNR activator rpsJp Sigma70 nd 3453270.0 rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ nd nd [GEA] [8]
  FNR repressor rpsPp Sigma70 nd 2746185.0 rpsP, rimM, trmD, rplS nd nd [GEA] [8]
  FNR repressor sdhCp Sigma70 nd -755177.0 sdhC, sdhD, sdhA, sdhB, sucA, sucB, sucC, sucD nd nd [GEA] [13], [90]
  FNR repressor sodAp Sigma70 -37.5 -88.5 sodA
aagtacggcaTTGATAATCATTTTcaatatcatt
4100715 4100728 [BCE], [GEA] [13], [91], [92]
  FNR repressor soxRp Sigma70 nd -4277469.0 soxR nd nd [GEA] [13]
  FNR repressor soxSp Sigma70 nd 4277383.0 soxS nd nd [GEA] [13]
  FNR activator ssuEp Sigma70 nd 997512.0 ssuE, ssuA, ssuD, ssuC, ssuB nd nd [AIBSCS], [GEA] [8]
  FNR repressor sucAp Sigma38 nd -758706.0 sucA, sucB, sucC, sucD nd nd [AIBSCS], [GEA] [93], [94]
  FNR activator tarp Sigma28 nd 1972691.0 tar, tap, cheR, cheB, cheY, cheZ nd nd [AIBSCS], [GEA] [10]
  FNR activator tdcAp nd -148.5 -176.5 tdcA, tdcB, tdcC, tdcD, tdcE, tdcF, tdcG
agcataaaccCTGATTTTTGTCAAaaaaaatgac
3267235 3267248 [AIBSCS], [GEA] [10]
  FNR activator tdcAp nd -105.5 -133.5 tdcA, tdcB, tdcC, tdcD, tdcE, tdcF, tdcG
aattaaatacCTTTAAATATCAACaagttaaagt
3267192 3267205 [AIBSCS], [GEA] [10]
  FNR repressor tpxp Sigma70 -18.5 -51.5 tpx
cacctagtttATGCTAACTGTCAAtaacacagca
1388856 1388869 [GEA], [HIBSCS] [95]
  FNR repressor ubiCp Sigma70 -0.5 -63.5 ubiC, ubiA
atcacttaatTTGCTTTACATCTCccgtaaacac
4252436 4252449 [GEA], [HIBSCS] [96]
  FNR activator uppp Sigma70 -61.5 -98.5 upp, uraA
ttgactttagTCAAAATGATAACGgtttgagata
2620964 2620977 [AIBSCS], [GEA] [10]
  FNR activator uxaCp Sigma70 nd 3244741.0 uxaC, uxaA nd nd [AIBSCS], [GEA] [10]
  FNR activator xdhAp nd nd -3000345.0 xdhA, xdhB, xdhC nd nd [GEA], [HIBSCS] [8]
  FNR activator ybdNp Sigma70 -303.5 -420.5 ybdN
ctatttccatTTGAATATCATCAAcccctgctga
636983 636996 [AIBSCS] [64]
  FNR activator ybdNp Sigma70 -26.5 -143.5 ybdN
tagctgtctgTAGTTATATATCAAaaactctcat
636706 636719 [AIBSCS] [64]
  FNR repressor ychOp Sigma70 nd -1273784.0 ychO nd nd [AIBSCS], [GEA] [10]
  FNR activator ydeJp Sigma70 -404.5 -489.5 ydeJ
gtcctctcctTTGTGAGAAATCAAattaccgcgt
1624277 1624290 [AIBSCS] [64]
  FNR activator ydhYp Sigma38 -42.5 -207.5 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
gcccttaacaTTGATCGTTATCAAttaaaattac
1754678 1754691 [BPP], [GEA], [HIBSCS], [SM] [97], [98]
  FNR activator yecRp nd nd -1988222.0 yecR nd nd [AIBSCS], [GEA] [10]
  FNR repressor yeiLp Sigma38 -28.5 -93.5 yeiL
gggccgatgaTTGAATCTTAACAAcagcgtacgt
2255255 2255268 [GEA], [HIBSCS] [99]
  FNR activator yfgFp nd -41.5 -134.5 pdeF
aaagtaccaaTTGATATATATCAAacaaaataac
2629066 2629079 [BPP], [GEA], [HIBSCS] [100]
  FNR repressor ygbAp nd nd 2856806.0 ygbA nd nd [AIBSCS], [GEA] [10]
  FNR activator yhjAp Sigma70 -41.5 -114.5 ccp
gatacgctttTTGATAGGAATCAAtcaattacat
3669296 3669309 [AIBSCS], [BPP] [101]
  FNR activator ynfEp Sigma70, Sigma38 -40.5 -106.0 ynfE, ynfF, ynfG, ynfH, dmsD
tacccttctaTTGATATGGATTAAtaattcttaa
1657956 1657970 [AIBSCS], [BPP], [GEA], [SM] [10], [97], [102]
  FNR activator yqjIp nd nd -3216779.0 yqjI nd nd [AIBSCS], [GEA] [10]
  FNR repressor ysgAp Sigma70 nd 4016169.0 ysgA nd nd [AIBSCS], [GEA] [10]
  FNR repressor ytfEp nd nd 4431983.0 ytfE nd nd [GEA] [103]
  FNR repressor zwfp Sigma70 nd 1936314.0 zwf nd nd [GEA] [13]



High-throughput Transcription factor binding sites (TFBSs)
      

  Functional conformation Function Object name Object type Distance to first Gene Sequence LeftPos RightPos Evidence (Confirmed, Strong, Weak) References
  FNR activator scpA-argK-scpBC nd nd nd nd [NTAS] [104]
  FNR activator ydfZ nd nd nd nd [ICWHO] nd
  FNR repressor gapC_1C_2 nd nd nd nd [ITCR] [8]
  FNR repressor ycaC nd nd nd nd [AISGDTU] nd
Other High-throughput regulatory interactions with weak evidence