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NarL DNA-binding transcriptional dual regulator

Synonyms: NarL-Phosphorylated, NarL
Summary:
NarL, "nitrate/nitrite response regulator NarL," is a transcriptional dual regulator of many anaerobic electron transport and fermentation-related genes in the response to the availability of high concentrations of nitrate or nitrite [48]. NarL activates expression of 51 operons in response to nitrate, mostly genes needed for nitrate respiration. NarL represses 41 operons involved in alternative respiratory pathways, such as fumarate reduction or fermentation of simple sugars [49]. The response regulator NarL belongs to the LuxR/UhpA family [] and is part of the two-component system NarX-NarL. There is intensive cross-regulation with the paralogous two-component system NarQ-NarP [18]. Each of the sensors, NarX and NarQ, is able to phosphorylate NarL and NarP, leading to the activation of both proteins. In the absence of nitrate and nitrite, NarX and NarQ stimulate the dephosphorylation of NarL-P and NarP-P [].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
NarL Non-Functional   Apo [BPP], [IPI] [1]
NarL-Phosphorylated Functional Covalent Holo [APPHINH], [BPP], [HIFS], [IMP], [IPI] [1], [2], [3], [4], [5], [6], [7]
Evolutionary Family: LuxR/UhpA
Sensing class: External-Two-component systems
Connectivity class: Local Regulator
Gene name: narL
  Genome position: 1275179-1275829
  Length: 651 bp / 216 aa
Operon name: narXL
TU(s) encoding the TF:
Transcription unit        Promoter
narXL
narXp


Regulon       
Regulated gene(s) adhE, aspA, caiF, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH, citC, citD, citE, citF, citG, citX, cydC, cydD, cysG, dcuA, dcuB, dcuR, dcuS, dmsA, dmsB, dmsC, dmsD, dpiA, dpiB, fdhF, fdnG, fdnH, fdnI, focA, frdA, frdB, frdC, frdD, fumB, hcp, hcr, hyaA, hyaB, hyaC, hyaD, hyaE, hyaF, hybA, hybB, hybC, hybD, hybE, hybF, hybG, hybO, moeA, moeB, napA, napB, napC, napD, napF, napG, napH,
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Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
anaerobic respiration (60)
membrane (39)
electron donors (25)
aerobic respiration (22)
cytochromes (20)
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Regulated operon(s) abgABT-ogt, adhE, aspA-dcuA, caiF, citCDEFXG, cydDC, dcuB-fumB, dcuSR, dmsABC, dpiBA, fdhF, fdnGHI, focA-pflB, frdABCD, hcp-hcr-poxB-ltaE-ybjT, hyaABCDEF, hybOABCDEFG, moeAB, napFDAGHBC-ccmABCDEFGH, narGHJI, narK, nikABCDER, nirBDC-cysG, norVW, nrfABCDEFG, nuoABCEFGHIJKLMN, ompW, torCAD, ubiCA, ydeP, ydhYVWXUT, yeaR-yoaG, ynfEFGH-dmsD, ytfE
First gene in the operon(s) adhE, aspA, caiF, citC, cydD, dcuB, dcuS, dmsA, dpiB, fdhF, fdnG, focA, frdA, hcp, hyaA, hybO, moeA, napF, narG, narK, nikA, nirB, norV, nrfA, nuoA, ogt, ompW, torC, ubiC, ydeP, ydhY, yeaR, ynfE, ytfE
Simple and complex regulons AppY,ArcA,Fis,IscR,NarL,NarP,YdeO
ArcA,CRP,DpiA,FNR,NarL
ArcA,CRP,FNR,Fur,NarL,SoxS
ArcA,CRP,FNR,IHF,NarL
ArcA,FNR,IHF,NarL
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Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[NarL,+](13)
[NarL,-](30)


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
  NarL-Phosphorylated repressor adhEp Sigma38 81.0 -212.0 adhE
cacgtaatcaGTACCCAGaagtgagtaa
1298330 1298336 [APIORCISFBSCS], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp Sigma38 90.0 -203.0 adhE
agtacccagaAGTGAGTAatcttgctta
1298321 1298327 [APIORCISFBSCS], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp1 Sigma70 81.0 -212.0 adhE
cacgtaatcaGTACCCAGaagtgagtaa
1298330 1298336 [APIORCISFBSCS], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp1 Sigma70 90.0 -203.0 adhE
agtacccagaAGTGAGTAatcttgctta
1298321 1298327 [APIORCISFBSCS], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp2 Sigma38 -24.0 -212.0 adhE
cacgtaatcaGTACCCAGaagtgagtaa
1298330 1298336 [APIORCISFBSCS], [GEA] [9]
  NarL-Phosphorylated repressor adhEp2 Sigma38 -15.0 -203.0 adhE
agtacccagaAGTGAGTAatcttgctta
1298321 1298327 [APIORCISFBSCS], [GEA] [9]
  NarL-Phosphorylated repressor aspAp Sigma70 -112.0 -217.0 aspA, dcuA
caactattttTGGTAGTAatcccaaagc
4368541 4368547 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor aspAp Sigma70 -76.0 -181.0 aspA, dcuA
atttcacaaaTTAATAATtaaggggtaa
4368505 4368511 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor aspAp Sigma70 -67.0 -172.0 aspA, dcuA
attaataattAAGGGGTAaaaaccgaca
4368496 4368502 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor caiFp Sigma70 nd nd caiF nd nd [BPP], [GEA], [IGI] [10]
  NarL-Phosphorylated repressor citCp2 nd 37.0 -147.0 citC, citD, citE, citF, citX, citG
tcacgccgaaATACTCCTtaggatgtat
652000 652007 [AIBSCS], [AIBSCS] [11]
  NarL-Phosphorylated activator cydDp Sigma70 -126.0 -195.0 cydD, cydC
cgccaggccaTTACTTCGgccggtacag
931154 931160 [APIORCISFBSCS], [GEA] [12]
  NarL-Phosphorylated activator cydDp Sigma70 -80.0 -149.0 cydD, cydC
atgcggaacgCTACCTCGatggtttagc
931108 931114 [APIORCISFBSCS], [GEA] [12]
  NarL-Phosphorylated repressor dcuBp Sigma70 -109.0 -129.0 dcuB, fumB
aatattcactGTGAGGTAtttgctaaag
4348870 4348876 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 -45.0 -65.0 dcuB, fumB
aaaacagttcATACAAAAcagaacgtga
4348806 4348812 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 2.0 -19.0 dcuB, fumB
aaatttaaatAGGATTATcgcgagggtt
4348760 4348766 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 19.0 -2.0 dcuB, fumB
tcgcgagggtTCACACATgttatttact
4348743 4348749 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 24.0 4.0 dcuB, fumB
agggttcacaCATGTTATttactatcca
4348738 4348744 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 43.0 23.0 dcuB, fumB
tactatccaaCTTATCATaatactgata
4348719 4348725 [APIORCISFBSCS], [GEA] [13]
  NarL-Phosphorylated repressor dcuSp Sigma70 -40.0 -63.0 dcuS, dcuR
ccaatcattcTTACTCCCtttgaattac
4351722 4351728 [APIORCISFBSCS], [BPP], [GEA] [2]
  NarL-Phosphorylated repressor dcuSp Sigma70 -31.0 -54.0 dcuS, dcuR
cttactccctTTGAATTAcccgcctcat
4351713 4351719 [APIORCISFBSCS], [BPP], [GEA] [2]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 -27.0 -163.0 dmsA, dmsB, dmsC
gaacaataatTACTCCTCacttacacgt
940793 940799 [BCE], [BPP] [14]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 -7.0 -143.0 dmsA, dmsB, dmsC
ttacacgtaaTACTACTTtcgagtgaaa
940813 940819 [BCE], [BPP] [14]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 15.0 -122.0 dmsA, dmsB, dmsC
agtgaaaatcTACCTATCtctttgattt
940834 940840 [APIORCISFBSCS], [BPP] [14]
  NarL-Phosphorylated repressor dpiBp nd 20.0 -232.0 dpiB, dpiA
atacatcctaAGGAGTATttcggcgtga
652000 652007 [AIBSCS] [11]
  NarL-Phosphorylated repressor dpiBp2 nd 25.0 -39.0 dpiB, dpiA
acattttaatTACATCCGtcaaagaggc
652193 652200 [AIBSCS] [11]
  NarL-Phosphorylated repressor fdhFp Sigma54 nd nd fdhF nd nd [BPP], [GEA], [IGI] [15]
  NarL-Phosphorylated activator fdnGp Sigma70 -124.0 -153.0 fdnG, fdnH, fdnI
cctgtcaggcAGTGGTGCgtttttctac
1547245 1547251 [APIORCISFBSCS], [BCE], [GEA], [SM] [5], [15], [16], [17], [18]
  NarL-Phosphorylated activator fdnGp Sigma70 -109.0 -138.0 fdnG, fdnH, fdnI
tgcgtttttcTACCGCTAttgaggtagg
1547260 1547266 [BCE], [GEA], [SM] [15], [19]
  NarL-Phosphorylated activator fdnGp Sigma70 -100.0 -129.0 fdnG, fdnH, fdnI
ctaccgctatTGAGGTAGgtcaatttgc
1547269 1547275 [APIORCISFBSCS], [BPP], [GEA], [SM] [15], [16], [17], [18]
  NarL-Phosphorylated activator fdnGp Sigma70 -77.0 -106.0 fdnG, fdnH, fdnI
tttgcgaaggCGGATTATtttgtggcaa
1547292 1547298 [APIORCISFBSCS], [BCE], [GEA], [SM] [15], [16], [17], [18]
  NarL-Phosphorylated repressor focAp1 Sigma70 -348.0 -375.0 focA, pflB
caatgtaggcTTAATGATtagtctgagt
954838 954844 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -346.0 -373.0 focA, pflB
atgtaggcttAATGATTAgtctgagtta
954836 954842 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -286.0 -313.0 focA, pflB
acatatatttGCATTAATaaaataattg
954776 954782 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -270.0 -297.0 focA, pflB
ataaaataatTGTAATTAtaaggttaaa
954760 954766 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -253.0 -280.0 focA, pflB
ataaggttaaATATCGGTaatttgtatt
954743 954749 [APIORCISFBSCS], [BPP], [GEA]
  NarL-Phosphorylated repressor focAp1 Sigma70 -235.0 -262.0 focA, pflB
aatttgtattTAATAAATacgatcgata
954725 954731 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -226.0 -253.0 focA, pflB
ttaataaataCGATCGATattgttactt
954716 954722 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -152.0 -179.0 focA, pflB
cggaaaaaatTCAACTCAtttgttaatt
954642 954648 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -101.0 -128.0 focA, pflB
taatcaaataTTTACTCCgtatttgcat
954591 954597 [APIORCISFBSCS], [BPP], [GEA]
  NarL-Phosphorylated repressor focAp1 Sigma70 -37.0 -64.0 focA, pflB
agatatgatcTATATCAAtttctcatct
954527 954533 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -20.0 -47.0 focA, pflB
atttctcatcTATAATGCtttgttagta
954510 954516 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 -27.0 -375.0 focA, pflB
caatgtaggcTTAATGATtagtctgagt
954838 954844 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 -25.0 -373.0 focA, pflB
atgtaggcttAATGATTAgtctgagtta
954836 954842 [APIORCISFBSCS], [BPP], [GEA]
  NarL-Phosphorylated repressor focAp3 Sigma70 36.0 -313.0 focA, pflB
acatatatttGCATTAATaaaataattg
954776 954782 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 52.0 -297.0 focA, pflB
ataaaataatTGTAATTAtaaggttaaa
954760 954766 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 69.0 -280.0 focA, pflB
ataaggttaaATATCGGTaatttgtatt
954743 954749 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 87.0 -262.0 focA, pflB
aatttgtattTAATAAATacgatcgata
954725 954731 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 96.0 -253.0 focA, pflB
ttaataaataCGATCGATattgttactt
954716 954722 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 170.0 -179.0 focA, pflB
cggaaaaaatTCAACTCAtttgttaatt
954642 954648 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 221.0 -128.0 focA, pflB
taatcaaataTTTACTCCgtatttgcat
954591 954597 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 285.0 -64.0 focA, pflB
agatatgatcTATATCAAtttctcatct
954527 954533 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 302.0 -47.0 focA, pflB
atttctcatcTATAATGCtttgttagta
954510 954516 [APIORCISFBSCS], [BPP], [GEA] [4]
  NarL-Phosphorylated repressor frdAp Sigma70 -26.0 -120.0 frdA, frdB, frdC, frdD
aatttcagacTTATCCATcagactatac
4382435 4382441 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70 -12.0 -106.0 frdA, frdB, frdC, frdD
ccatcagactATACTGTTgtacctataa
4382421 4382427 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70 -4.0 -98.0 frdA, frdB, frdC, frdD
ctatactgttGTACCTATaaaggagcag
4382413 4382419 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70 6.0 -89.0 frdA, frdB, frdC, frdD
tgtacctataAAGGAGCAgtggaatagc
4382404 4382410 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70 14.0 -81.0 frdA, frdB, frdC, frdD
taaaggagcaGTGGAATAgcgttcgcag
4382396 4382402 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp2 Sigma38 -26.0 -120.0 frdA, frdB, frdC, frdD
aatttcagacTTATCCATcagactatac
4382435 4382441 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp2 Sigma38 -12.0 -106.0 frdA, frdB, frdC, frdD
ccatcagactATACTGTTgtacctataa
4382421 4382427 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp2 Sigma38 -4.0 -98.0 frdA, frdB, frdC, frdD
ctatactgttGTACCTATaaaggagcag
4382413 4382419 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp2 Sigma38 6.0 -89.0 frdA, frdB, frdC, frdD
tgtacctataAAGGAGCAgtggaatagc
4382404 4382410 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp2 Sigma38 14.0 -81.0 frdA, frdB, frdC, frdD
taaaggagcaGTGGAATAgcgttcgcag
4382396 4382402 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator hcpp nd -109.0 -140.0 hcp, hcr, poxB
tctctgcgtaATACCTCTctggcggtag
913951 913957 [APIORCISFBSCS], [BPP], [GEA] [20], [21]
  NarL-Phosphorylated activator hcpp nd -100.0 -131.0 hcp, hcr, poxB
aatacctctcTGGCGGTAgatccctgcc
913942 913948 [APIORCISFBSCS], [BPP], [GEA] [20], [21]
  NarL-Phosphorylated repressor hyaAp Sigma70 -10.0 -165.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
aaagtttcacTACGCTTTattaacaata
1031971 1031977 [APIORCISFBSCS], [GEA]
  NarL-Phosphorylated repressor hyaAp Sigma70 7.0 -149.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
ttattaacaaTACTTTCTggcgacgtgc
1031987 1031993 [APIORCISFBSCS], [GEA]
  NarL-Phosphorylated repressor hyaAp2 Sigma38 -10.0 -165.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
aaagtttcacTACGCTTTattaacaata
1031971 1031977 [APIORCISFBSCS], [GEA]
  NarL-Phosphorylated repressor hyaAp2 Sigma38 7.0 -149.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
ttattaacaaTACTTTCTggcgacgtgc
1031987 1031993 [APIORCISFBSCS], [GEA]
  NarL-Phosphorylated repressor hybOp1 Sigma70 -76.0 -178.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
ttgatcaaacATACGTATtatcttgctt
3146436 3146442 [APIORCISFBSCS], [GEA] [22]
  NarL-Phosphorylated repressor hybOp1 Sigma70 -51.0 -153.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
ctttaattaaTTACACTAatgcttcttc
3146411 3146417 [APIORCISFBSCS], [GEA] [22]
  NarL-Phosphorylated repressor hybOp1 Sigma70 21.0 -82.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
cataataaatGTGTGGTAaatggcgcat
3146340 3146346 [APIORCISFBSCS], [GEA] [22]
  NarL-Phosphorylated activator moeAp Sigma70 -177.0 -207.0 moeA, moeB
aatgactgctTTGCCCATagtattcgtc
866568 866574 [AIBSCS], [GEA] [23]
  NarL-Phosphorylated activator moeAp Sigma70 -109.0 -139.0 moeA, moeB
tttttatgaaTTACTCATtcaatttttg
866500 866506 [AIBSCS], [GEA] [23]
  NarL-Phosphorylated repressor napFp1 Sigma70 -49.0 -126.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
gctacaggttTTACCCCGatcggggtat
2303620 2303626 [APIORCISFBSCS], [GEA], [SM] [24], [25], [26]
  NarL-Phosphorylated repressor napFp1 Sigma70 -40.0 -117.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
tttaccccgaTCGGGGTAtgcatctttg
2303611 2303617 [APIORCISFBSCS], [GEA], [SM] [24], [25], [26]
  NarL-Phosphorylated repressor napFp2 Sigma70 -46.0 -126.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
gctacaggttTTACCCCGatcggggtat
2303620 2303626 [APIORCISFBSCS], [GEA], [SM] [26]
  NarL-Phosphorylated repressor napFp2 Sigma70 -37.0 -117.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
tttaccccgaTCGGGGTAtgcatctttg
2303611 2303617 [APIORCISFBSCS], [GEA], [SM] [26]
  NarL-Phosphorylated activator narGp Sigma70 -208.0 -265.0 narG, narH, narJ, narI
attaatatgtTACCCATGgggaatactc
1279596 1279602 [APIORCISFBSCS], [BPP], [GEA] [5], [27], [28]
  NarL-Phosphorylated activator narGp Sigma70 -195.0 -252.0 narG, narH, narJ, narI
ccatggggaaTACTCCTTaatacccatc
1279609 1279615 [APIORCISFBSCS], [BPP], [GEA], [SM] [5], [27], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -185.0 -242.0 narG, narH, narJ, narI
tactccttaaTACCCATCtgcataaaaa
1279619 1279625 [APIORCISFBSCS], [BPP], [GEA], [SM] [5], [27], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -101.0 -158.0 narG, narH, narJ, narI
tggtggctgtTAATTATCctaaaggggt
1279703 1279709 [APIORCISFBSCS], [BPP], [GEA], [SM] [5], [17], [18], [27], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -89.0 -146.0 narG, narH, narJ, narI
attatcctaaAGGGGTATcttaggaatt
1279715 1279721 [APIORCISFBSCS], [BPP], [GEA], [SM] [5], [27], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -79.0 -136.0 narG, narH, narJ, narI
aggggtatctTAGGAATTtactttattt
1279725 1279731 [APIORCISFBSCS], [BPP], [GEA] [5], [27], [28]
  NarL-Phosphorylated activator narGp Sigma70 -71.0 -128.0 narG, narH, narJ, narI
cttaggaattTACTTTATttttcatccc
1279733 1279739 [APIORCISFBSCS], [BPP], [GEA] [5], [27], [28]
  NarL-Phosphorylated activator narGp Sigma70 -57.0 -114.0 narG, narH, narJ, narI
ttatttttcaTCCCCATCactcttgatc
1279747 1279753 [APIORCISFBSCS], [BPP], [GEA] [5], [27], [28]
  NarL-Phosphorylated activator narKp1 Sigma70 -214.0 -239.0 narK
ggctgaagtaTACCCATAcccggaaaga
1277715 1277721 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -194.0 -219.0 narK
cggaaagagtTACTCCTTatttgccgtg
1277735 1277741 [APIORCISFBSCS], [BPP], [SM] [5], [30]
  NarL-Phosphorylated activator narKp1 Sigma70 -177.0 -202.0 narK
tatttgccgtGTGGTTAGtcgctttaca
1277752 1277758 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -160.0 -185.0 narK
gtcgctttacATCGGTAAgggtagggat
1277769 1277775 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -154.0 -179.0 narK
ttacatcggtAAGGGTAGggattttaca
1277775 1277781 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -103.0 -128.0 narK
tttatgaagtCACTGTACtcactatggg
1277826 1277832 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -98.0 -123.0 narK
gaagtcactgTACTCACTatgggtaatg
1277831 1277837 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -90.0 -115.0 narK
tgtactcactATGGGTAAtgataaatat
1277839 1277845 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -80.0 -105.0 narK
atgggtaatgATAAATATcaatgataga
1277849 1277855 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -67.0 -92.0 narK
aatatcaatgATAGATAAagttatctta
1277862 1277868 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor nikAp1 nd nd nd nikA, nikB, nikC, nikD, nikE, nikR nd nd [BPP], [GEA], [IGI] [31]
  NarL-Phosphorylated activator nirBp Sigma70 -74.0 -98.0 nirB, nirD, nirC, cysG
atcagcaataTACCCATTaaggagtata
3493910 3493916 [BCE], [BPP], [GEA], [SM] [17], [32], [33]
  NarL-Phosphorylated activator nirBp Sigma70 -65.0 -89.0 nirB, nirD, nirC, cysG
atacccattaAGGAGTATataaaggtga
3493919 3493925 [BCE], [BPP], [GEA], [SM] [17], [32], [33]
  NarL-Phosphorylated repressor norVp Sigma54 -78.0 -115.0 norV, norW
tcattttgacTACTCATTaatgggcata
2832358 2832364 [APIORCISFBSCS], [GEA] [34]
  NarL-Phosphorylated repressor norVp Sigma54 -69.0 -106.0 norV, norW
ctactcattaATGGGCATaattttattt
2832367 2832373 [APIORCISFBSCS], [GEA] [34]
  NarL-Phosphorylated activator nrfAp Sigma70 -79.0 -172.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
agatactgacTAACTCTAaagtggtatt
4287589 4287595 [AIBSCS], [BPP], [GEA], [SM] [17], [18], [33], [35], [36], [37]
  NarL-Phosphorylated activator nrfAp Sigma70 -70.0 -163.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
ctaactctaaAGTGGTATtttacatgca
4287598 4287604 [APIORCISFBSCS], [BPP], [GEA], [SM] [17], [18], [33], [35], [36], [37]
  NarL-Phosphorylated activator nrfAp Sigma70 -50.0 -143.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
tacatgcactTACAATTGattaaagaca
4287618 4287624 [APIORCISFBSCS], [BPP], [GEA], [SM] [17], [18], [33], [35], [37]
  NarL-Phosphorylated repressor nrfAp Sigma70 -50.0 -143.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
tacatgcactTACAATTGattaaagaca
4287618 4287624 [APIORCISFBSCS], [BPP], [GEA], [SM] [17], [18], [33], [35], [37]
  NarL-Phosphorylated repressor nrfAp Sigma70 -22.0 -115.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
acattcacagTGTGGTTAtttgttacac
4287646 4287652 [APIORCISFBSCS], [BPP], [GEA], [SM] [17], [18], [33], [35], [37]
  NarL-Phosphorylated activator nuoAp2 Sigma70 -122.0 -212.0 nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN
agggcattaaATGCTAATggtgttgata
2405281 2405287 [APIORCISFBSCS], [GEA]
  NarL-Phosphorylated activator ogtp nd -83.0 -131.0 ogt
gcgaaactggGTACTTACtattcgttag
1400364 1400371 [BPP], [GEA], [SM] [38], [39]
  NarL-Phosphorylated activator ogtp nd -74.0 -122.0 ogt
ggtacttactATTCGTTAgtcttgccct
1400355 1400362 [BPP], [GEA], [SM] [38], [39]
  NarL-Phosphorylated activator ogtp nd -50.0 -98.0 ogt
ccctatccacTTATCTTTttggtggtat
1400331 1400338 [BPP], [GEA], [SM] [38], [39]
  NarL-Phosphorylated activator ogtp nd -41.0 -89.0 ogt
cttatcttttTGGTGGTAtggctgctga
1400322 1400329 [BPP], [GEA], [SM] [38], [39]
  NarL-Phosphorylated repressor ompWp nd -18.5 -47.5 ompW
gatcatttgtTACTCCAATGTAGGTATattcgtcacg
1313965 1313981 [AIBSCS], [BPP], [GEA] [40]
  NarL-Phosphorylated repressor torCp Sigma70 nd nd torC, torA, torD nd nd [BPP], [GEA], [IGI] [41]
  NarL-Phosphorylated repressor ubiCp Sigma70 nd nd ubiC, ubiA nd nd [BPP], [GEA], [IGI] [42]
  NarL-Phosphorylated activator ydePp Sigma70 nd nd ydeP nd nd [BPP], [GEA], [IGI] [43]
  NarL-Phosphorylated repressor ydhYp Sigma38 -42.0 -207.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
attttaattgATAACGATcaatgttaag
1754681 1754687 [APIORCISFBSCS], [GEA] [44]
  NarL-Phosphorylated repressor ydhYp Sigma38 -16.0 -181.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
agggctcagaATAATCACattatttttt
1754655 1754661 [APIORCISFBSCS], [BPP], [GEA], [SM] [44]
  NarL-Phosphorylated repressor ydhYp Sigma38 6.0 -160.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
attttttctcCTAACCATaaaggattag
1754634 1754641 [APIORCISFBSCS], [BPP], [GEA], [SM] [44]
  NarL-Phosphorylated repressor ydhYp Sigma38 15.0 -151.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
cctaaccataAAGGATTAgtttatcggc
1754625 1754632 [APIORCISFBSCS], [BPP], [GEA], [SM] [44]
  NarL-Phosphorylated activator yeaRp Sigma70 -48.0 -94.0 yeaR, yoaG
gtgctaaaaaGTAACCAAtaaatggtat
1880039 1880045 [AIBSCS], [BPP], [GEA] [39], [45]
  NarL-Phosphorylated activator yeaRp Sigma70 -39.0 -85.0 yeaR, yoaG
agtaaccaatAAATGGTAtttaaaatgc
1880030 1880036 [AIBSCS], [BPP], [GEA] [39], [45]
  NarL-Phosphorylated repressor ynfEp Sigma70 -23.0 -89.0 ynfE, ynfF, ynfG, ynfH, dmsD
taataattctTAACCCAAaatgggtaga
1657977 1657983 [AIBSCS], [BPP] [46]
  NarL-Phosphorylated repressor ynfEp Sigma70 -14.0 -80.0 ynfE, ynfF, ynfG, ynfH, dmsD
ttaacccaaaATGGGTAGactccctcta
1657986 1657992 [AIBSCS], [BPP] [46]
  NarL-Phosphorylated repressor ynfEp2 Sigma38 -23.0 -89.0 ynfE, ynfF, ynfG, ynfH, dmsD
taataattctTAACCCAAaatgggtaga
1657977 1657983 [AIBSCS], [BPP] [46]
  NarL-Phosphorylated repressor ynfEp2 Sigma38 -14.0 -80.0 ynfE, ynfF, ynfG, ynfH, dmsD
ttaacccaaaATGGGTAGactccctcta
1657986 1657992 [AIBSCS], [BPP] [46]
  NarL-Phosphorylated activator ytfEp nd -50.0 -76.0 ytfE
aaataagcctCTGCTACGtaagggttat
4432056 4432062 [AIBSCS] [47]
  NarL-Phosphorylated activator ytfEp nd -41.0 -67.0 ytfE
tctgctacgtAAGGGTTAtagcttttgc
4432047 4432053 [AIBSCS] [47]


Alignment and PSSM for NarL TFBSs    

Aligned TFBS of NarL   
  Sequence
  ATACCCATTAAGGAGTA
  ATACCCCGATCGGGGTA
  ATAACCCTTACGTAGCA
  ATACCCCTTTAGGATAA
  CTACTCATTAATGGGCA
  CTACCGCTATTGAGGTA
  TTACTCACTTCTGGGTA
  TTACCCCTTAATTATTA
  CTAACTCTAAAGTGGTA
  CTAATCCTTTATGGTTA
  ATACCTACATTGGAGTA
  ATAATGCTTTGTTAGTA
  TTAACCCAAAATGGGTA
  GTACCTATAAAGGAGCA
  GTACTCACTATGGGTAA
  ATAACGATCAATGTTAA
  CTACCCTTACCGATGTA
  ATACCCATACCCGGAAA
  CTACCTATCTCTTTGAT
  ATACCATTTATTGGTTA
  TTACTCCTTATTTGCCG
  TTACTCCGTATTTGCAT
  ATACTACTTTCGAGTGA
  GTAATTCAAAGGGAGTA
  ATACCTCACAGTGAATA
  CTAACGAATAGTAAGTA
  GTAATTATAAGGTTAAA
  TTACCGATATTTAACCT
  TTAATGATTAGTCTGAG
  ATACTCCTTAATACCCA
  TTACTCCTCACTTACAC
  ATAATCCGCCTTCGCAA
  ATAACCACACTGTGAAT
  TTAATTACATCCGTCAA
  TTACCACACATTTATTA
  CTAACCACACGGCAAAT
  CTACCTCGATGGTTTAG
  ATACCACCAAAAAGATA
  ATAACTTTATCTATCAT
  CTACCGCCAGAGAGGTA
  ATTATGATAAGTTGGAT
  ATAATACGTATGTTTGA
  TAAATGCTAATGGTGTT
  GTAACAATATCGATCGT
  GTATTCCCCATGGGTAA
  TTAATCAATTGTAAGTG
  ATAATCACATTATTTTT
  ATCCCCATCACTCTTGA
  TTACTCATTCAATTTTT
  TAAATAACATGTGTGAA
  ACAATACTTTCTGGCGA
  CAACTCATTTGTTAATT
  CTACGCTTTATTAACAA
  ATTACACTAATGCTTCT
  TTATCCATCAGACTATA
  GTTCTGTTTTGTATGAA
  ATATCAATTTCTCATCT
  TTACTTCGGCCGGTACA
  ATAATTAACAGCCACCA
  CGAATACTATGGGCAAA
  TTACTACCAAAAATAGT
  TTTACTTTATTTTTCAT
  CGAACGCTATTCCACTG
  ATTATTTTATTAATGCA
  ATAGTGAGTACAGTGAC
  GCACCACTGCCTGACAG
  CTCGCGATAATCCTATT
  CGAAATACTCCTTAGGA

Position weight matrix (PWM). NarL matrix-quality result   
A	26	3	61	30	1	13	30	7	30	33	14	7	15	22	12	24	43
C	16	2	2	33	34	27	31	13	10	9	18	5	10	2	15	11	2
G	8	3	0	2	1	13	0	7	2	1	16	24	24	20	25	7	6
T	18	60	5	3	32	15	7	41	26	25	20	32	19	24	16	26	17

Consensus   
;	consensus.strict             	aTAcccctaacggggta
;	consensus.strict.rc          	TACCCCGTTAGGGGTAT
;	consensus.IUPAC              	mTAmycmtwwskgdswa
;	consensus.IUPAC.rc           	TWSHCMSWWAKGRKTAK
;	consensus.regexp             	[ac]TA[ac][ct]c[ac]t[at][at][cg][gt]g[agt][cg][at]a
;	consensus.regexp.rc          	T[AT][CG][ACT]C[AC][CG][AT][AT]A[GT]G[AG][GT]TA[GT]

PWM logo   


 


Evolutionary conservation of regulatory elements    
     Note: Evolutionary conservation of regulatory interactions and promoters is limited to gammaproteobacteria.
TF-target gene evolutionary conservation
Promoter-target gene evolutionary conservation