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NarL DNA-binding transcriptional dual regulator

Synonyms: NarL, NarL-Phosphorylated
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 [49]. 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 [50]. 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 [19]. 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, adhE, aspA, aspA, caiF, citC, cydD, dcuB, dcuS, dmsA, dpiB, dpiB, fdhF, fdnG, focA, focA, frdA, hcp, hcp, hyaA, hybO, moeA, napF, 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,-](26)
[NarL,+](13)


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 adhEp1 Sigma38, Sigma70 81.0 -212.0 adhE
gatcacgtaaTCAGTACCCAGAAGTGagtaatcttg
 1298325 1298340 [APIORCISFBSCS], [CV(GEA)], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp1 Sigma38, Sigma70 90.0 -203.0 adhE
atcagtacccAGAAGTGAGTAATCTTgcttacgcca
 1298316 1298331 [APIORCISFBSCS], [CV(GEA)], [GEA] [8], [9]
  NarL-Phosphorylated repressor adhEp2 Sigma38 -24.0 -212.0 adhE
gatcacgtaaTCAGTACCCAGAAGTGagtaatcttg
 1298325 1298340 [APIORCISFBSCS], [CV(GEA)], [GEA] [9]
  NarL-Phosphorylated repressor adhEp2 Sigma38 -15.0 -203.0 adhE
atcagtacccAGAAGTGAGTAATCTTgcttacgcca
 1298316 1298331 [APIORCISFBSCS], [CV(GEA)], [GEA] [9]
  NarL-Phosphorylated repressor aspAp Sigma70 -112.0 -217.0 aspA, dcuA
gcgcaactatTTTTGGTAGTAATCCCaaagcggtga
 4368536 4368551 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor aspAp Sigma70 -76.0 -181.0 aspA, dcuA
tctatttcacAAATTAATAATTAAGGggtaaaaacc
 4368500 4368515 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor aspAp Sigma70 -67.0 -172.0 aspA, dcuA
caaattaataATTAAGGGGTAAAAACcgacacttaa
 4368491 4368506 [BPP], [GEA] [2]
  NarL-Phosphorylated repressor caiFp Sigma70 nd nd caiF
nd
 nd nd [GEA] [10]
  NarL-Phosphorylated repressor citCp2 nd 37.0 -147.0 citC, citD, citE, citF, citX, citG
tcacgccgaaATACTCCTtaggatgtat
 652000 652007 [AIBSCS] [11]
  NarL-Phosphorylated activator cydDp Sigma70 -126.0 -195.0 cydD, cydC
tatcgccaggCCATTACTTCGGCCGGtacaggctgc
 931149 931164 [APIORCISFBSCS], [CV(GEA)], [GEA] [12]
  NarL-Phosphorylated activator cydDp Sigma70 -80.0 -149.0 cydD, cydC
ttgatgcggaACGCTACCTCGATGGTttagctgacg
 931103 931118 [APIORCISFBSCS], [CV(GEA)], [GEA] [12]
  NarL-Phosphorylated repressor dcuBp Sigma70 -109.0 -129.0 dcuB, fumB
gccaatattcACTGTGAGGTATTTGCtaaagccggt
 4348865 4348880 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 -45.0 -65.0 dcuB, fumB
ctgaaaacagTTCATACAAAACAGAAcgtgactgtg
 4348801 4348816 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 2.0 -19.0 dcuB, fumB
caaaaatttaAATAGGATTATCGCGAgggttcacac
 4348755 4348770 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 19.0 -2.0 dcuB, fumB
ttatcgcgagGGTTCACACATGTTATttactatcca
 4348738 4348753 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 24.0 4.0 dcuB, fumB
gcgagggttcACACATGTTATTTACTatccaactta
 4348733 4348748 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuBp Sigma70 43.0 23.0 dcuB, fumB
atttactatcCAACTTATCATAATACtgatatgtct
 4348714 4348729 [APIORCISFBSCS], [CV(GEA)], [GEA] [13]
  NarL-Phosphorylated repressor dcuSp Sigma70 -40.0 -63.0 dcuS, dcuR
tagccaatcaTTCTTACTCCCTTTGAattacccgcc
 4351717 4351732 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2]
  NarL-Phosphorylated repressor dcuSp Sigma70 -31.0 -54.0 dcuS, dcuR
attcttactcCCTTTGAATTACCCGCctcatcagag
 4351708 4351723 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 -27.0 -163.0 dmsA, dmsB, dmsC
ataccgaacaATAATTACTCCTCACTtacacgtaat
 940788 940803 [BCE], [BPP] [14], [15]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 -7.0 -143.0 dmsA, dmsB, dmsC
ctcacttacaCGTAATACTACTTTCGagtgaaaatc
 940808 940823 [BCE], [BPP] [14], [15]
  NarL-Phosphorylated repressor dmsAp1 Sigma70 15.0 -122.0 dmsA, dmsB, dmsC
tttcgagtgaAAATCTACCTATCTCTttgattttca
 940829 940844 [APIORCISFBSCS], [BPP] [14], [15]
  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 nd [BPP], [GEA] [16]
  NarL-Phosphorylated activator fdnGp Sigma70 -124.0 -153.0 fdnG, fdnH, fdnI
actggcctgtCAGGCAGTGGTGCGTTtttctaccgc
 1547240 1547255 [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [5], [16], [17], [18], [19]
  NarL-Phosphorylated activator fdnGp Sigma70 -109.0 -138.0 fdnG, fdnH, fdnI
agtggtgcgtTTTTCTACCGCTATTGaggtaggtca
 1547255 1547270 [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [16], [20]
  NarL-Phosphorylated activator fdnGp Sigma70 -100.0 -129.0 fdnG, fdnH, fdnI
tttttctaccGCTATTGAGGTAGGTCaatttgcgaa
 1547264 1547279 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [16], [17], [18], [19]
  NarL-Phosphorylated activator fdnGp Sigma70 -77.0 -106.0 fdnG, fdnH, fdnI
gtcaatttgcGAAGGCGGATTATTTTgtggcaaaca
 1547287 1547302 [APIORCISFBSCS], [BCE], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [16], [17], [18], [19]
  NarL-Phosphorylated repressor focAp1 Sigma70 -348.0 -375.0 focA, pflB
acgcaatgtaGGCTTAATGATTAGTCtgagttatat
 954833 954848 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -346.0 -373.0 focA, pflB
gcaatgtaggCTTAATGATTAGTCTGagttatatta
 954831 954846 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -286.0 -313.0 focA, pflB
tttacatataTTTGCATTAATAAAATaattgtaatt
 954771 954786 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -270.0 -297.0 focA, pflB
ttaataaaatAATTGTAATTATAAGGttaaatatcg
 954755 954770 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -253.0 -280.0 focA, pflB
attataaggtTAAATATCGGTAATTTgtatttaata
 954738 954753 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -235.0 -262.0 focA, pflB
ggtaatttgtATTTAATAAATACGATcgatattgtt
 954720 954735 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -226.0 -253.0 focA, pflB
tatttaataaATACGATCGATATTGTtactttattc
 954711 954726 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -152.0 -179.0 focA, pflB
atgcggaaaaAATTCAACTCATTTGTtaatttttaa
 954637 954652 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -101.0 -128.0 focA, pflB
ggataatcaaATATTTACTCCGTATTtgcataaaaa
 954586 954601 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -37.0 -64.0 focA, pflB
gcgagatatgATCTATATCAATTTCTcatctataat
 954522 954537 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp1 Sigma70 -20.0 -47.0 focA, pflB
tcaatttctcATCTATAATGCTTTGTtagtatctcg
 954505 954520 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 -27.0 -375.0 focA, pflB
acgcaatgtaGGCTTAATGATTAGTCtgagttatat
 954833 954848 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 -25.0 -373.0 focA, pflB
gcaatgtaggCTTAATGATTAGTCTGagttatatta
 954831 954846 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 36.0 -313.0 focA, pflB
tttacatataTTTGCATTAATAAAATaattgtaatt
 954771 954786 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 52.0 -297.0 focA, pflB
ttaataaaatAATTGTAATTATAAGGttaaatatcg
 954755 954770 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 69.0 -280.0 focA, pflB
attataaggtTAAATATCGGTAATTTgtatttaata
 954738 954753 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 87.0 -262.0 focA, pflB
ggtaatttgtATTTAATAAATACGATcgatattgtt
 954720 954735 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 96.0 -253.0 focA, pflB
tatttaataaATACGATCGATATTGTtactttattc
 954711 954726 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 170.0 -179.0 focA, pflB
atgcggaaaaAATTCAACTCATTTGTtaatttttaa
 954637 954652 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 221.0 -128.0 focA, pflB
ggataatcaaATATTTACTCCGTATTtgcataaaaa
 954586 954601 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 285.0 -64.0 focA, pflB
gcgagatatgATCTATATCAATTTCTcatctataat
 954522 954537 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor focAp3 Sigma70 302.0 -47.0 focA, pflB
tcaatttctcATCTATAATGCTTTGTtagtatctcg
 954505 954520 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [4]
  NarL-Phosphorylated repressor frdAp Sigma70, Sigma38 -26.0 -120.0 frdA, frdB, frdC, frdD
tcaaatttcaGACTTATCCATCAGACtatactgttg
 4382430 4382445 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70, Sigma38 -12.0 -106.0 frdA, frdB, frdC, frdD
tatccatcagACTATACTGTTGTACCtataaaggag
 4382416 4382431 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70, Sigma38 -4.0 -98.0 frdA, frdB, frdC, frdD
agactatactGTTGTACCTATAAAGGagcagtggaa
 4382408 4382423 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70, Sigma38 6.0 -89.0 frdA, frdB, frdC, frdD
tgttgtacctATAAAGGAGCAGTGGAatagcgttcg
 4382399 4382414 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor frdAp Sigma70, Sigma38 14.0 -81.0 frdA, frdB, frdC, frdD
ctataaaggaGCAGTGGAATAGCGTTcgcagaccgt
 4382391 4382406 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator hcpp nd -109.0 -140.0 hcp, hcr, poxB
ttttctctgcGTAATACCTCTCTGGCggtagatccc
 913946 913961 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [21], [22]
  NarL-Phosphorylated activator hcpp nd -100.0 -131.0 hcp, hcr, poxB
cgtaatacctCTCTGGCGGTAGATCCctgccgccaa
 913937 913952 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [21], [22]
  NarL-Phosphorylated repressor hyaAp Sigma70, Sigma38 -10.0 -165.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
gtgcaaaagtTTCACTACGCTTTATTaacaatactt
 1031966 1031981 [APIORCISFBSCS], [CV(GEA)], [GEA] [23]
  NarL-Phosphorylated repressor hyaAp Sigma70, Sigma38 7.0 -149.0 hyaA, hyaB, hyaC, hyaD, hyaE, hyaF
acgctttattAACAATACTTTCTGGCgacgtgcgcc
 1031982 1031997 [APIORCISFBSCS], [CV(GEA)], [GEA] [23]
  NarL-Phosphorylated repressor hybOp1 Sigma70 -76.0 -178.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
aaattgatcaAACATACGTATTATCTtgctttaatt
 3146431 3146446 [APIORCISFBSCS], [CV(GEA)], [GEA] [23]
  NarL-Phosphorylated repressor hybOp1 Sigma70 -51.0 -153.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
ttgctttaatTAATTACACTAATGCTtcttcccttc
 3146406 3146421 [APIORCISFBSCS], [CV(GEA)], [GEA] [23]
  NarL-Phosphorylated repressor hybOp1 Sigma70 21.0 -82.0 hybO, hybA, hybB, hybC, hybD, hybE, hybF, hybG
aaccataataAATGTGTGGTAAATGGcgcatcgatc
 3146335 3146350 [APIORCISFBSCS], [CV(GEA)], [GEA] [23]
  NarL-Phosphorylated activator moeAp Sigma70 -177.0 -207.0 moeA, moeB
tgcaatgactGCTTTGCCCATAGTATtcgtccatta
 866563 866578 [AIBSCS], [CV(GEA)], [GEA] [24]
  NarL-Phosphorylated activator moeAp Sigma70 -109.0 -139.0 moeA, moeB
gaatttttatGAATTACTCATTCAATttttgaatat
 866495 866510 [AIBSCS], [CV(GEA)], [GEA] [24]
  NarL-Phosphorylated repressor napFp1 Sigma70 -49.0 -126.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
cctgctacagGTTTTACCCCGATCGGggtatgcatc
 2303615 2303630 [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [25], [26], [27]
  NarL-Phosphorylated repressor napFp1 Sigma70 -40.0 -117.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
ggttttacccCGATCGGGGTATGCATctttgacaca
 2303606 2303621 [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [25], [26], [27]
  NarL-Phosphorylated repressor napFp2 Sigma70 -46.0 -126.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
cctgctacagGTTTTACCCCGATCGGggtatgcatc
 2303615 2303630 [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [25], [26], [27]
  NarL-Phosphorylated repressor napFp2 Sigma70 -37.0 -117.0 napF, napD, napA, napG, napH, napB, napC, ccmA, ccmB, ccmC, ccmD, ccmE, ccmF, ccmG, ccmH
ggttttacccCGATCGGGGTATGCATctttgacaca
 2303606 2303621 [APIORCISFBSCS], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [25], [26], [27]
  NarL-Phosphorylated activator narGp Sigma70 -208.0 -265.0 narG, narH, narJ, narI
gagccattaaTATGTTACCCATGGGGaatactcctt
 1279591 1279606 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [5], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -195.0 -252.0 narG, narH, narJ, narI
gttacccatgGGGAATACTCCTTAATacccatctgc
 1279604 1279619 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [5], [28], [29], [30]
  NarL-Phosphorylated activator narGp Sigma70 -185.0 -242.0 narG, narH, narJ, narI
gggaatactcCTTAATACCCATCTGCataaaaatct
 1279614 1279629 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [5], [28], [29], [30]
  NarL-Phosphorylated activator narGp Sigma70 -101.0 -158.0 narG, narH, narJ, narI
ttatgtggtgGCTGTTAATTATCCTAaaggggtatc
 1279698 1279713 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [5], [18], [19], [28], [29], [30]
  NarL-Phosphorylated activator narGp Sigma70 -89.0 -146.0 narG, narH, narJ, narI
tgttaattatCCTAAAGGGGTATCTTaggaatttac
 1279710 1279725 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [5], [28], [29], [30]
  NarL-Phosphorylated activator narGp Sigma70 -79.0 -136.0 narG, narH, narJ, narI
cctaaaggggTATCTTAGGAATTTACtttatttttc
 1279720 1279735 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [5], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -71.0 -128.0 narG, narH, narJ, narI
ggtatcttagGAATTTACTTTATTTTtcatccccat
 1279728 1279743 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [5], [28], [29]
  NarL-Phosphorylated activator narGp Sigma70 -57.0 -114.0 narG, narH, narJ, narI
ttactttattTTTCATCCCCATCACTcttgatcgtt
 1279742 1279757 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [5], [28], [29]
  NarL-Phosphorylated activator narKp1 Sigma70 -214.0 -239.0 narK
ctattggctgAAGTATACCCATACCCggaaagagtt
 1277710 1277725 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -194.0 -219.0 narK
atacccggaaAGAGTTACTCCTTATTtgccgtgtgg
 1277730 1277745 [APIORCISFBSCS], [BPP], [CV(SM)], [SM] [5], [31]
  NarL-Phosphorylated activator narKp1 Sigma70 -177.0 -202.0 narK
ctccttatttGCCGTGTGGTTAGTCGctttacatcg
 1277747 1277762 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -160.0 -185.0 narK
ggttagtcgcTTTACATCGGTAAGGGtagggatttt
 1277764 1277779 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -154.0 -179.0 narK
tcgctttacaTCGGTAAGGGTAGGGAttttacagca
 1277770 1277785 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -103.0 -128.0 narK
taatttttatGAAGTCACTGTACTCActatgggtaa
 1277821 1277836 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -98.0 -123.0 narK
tttatgaagtCACTGTACTCACTATGggtaatgata
 1277826 1277841 [APIORCISFBSCS], [BPP] [5], [31]
  NarL-Phosphorylated activator narKp1 Sigma70 -90.0 -115.0 narK
gtcactgtacTCACTATGGGTAATGAtaaatatcaa
 1277834 1277849 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -80.0 -105.0 narK
tcactatgggTAATGATAAATATCAAtgatagataa
 1277844 1277859 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated activator narKp1 Sigma70 -67.0 -92.0 narK
tgataaatatCAATGATAGATAAAGTtatcttatcg
 1277857 1277872 [APIORCISFBSCS], [BPP] [5]
  NarL-Phosphorylated repressor nikAp1 nd nd nd nikA, nikB, nikC, nikD, nikE, nikR
nd
 nd nd [GEA] [32]
  NarL-Phosphorylated activator nirBp Sigma70 -74.0 -98.0 nirB, nirD, nirC, cysG
tacaaatcagCAATATACCCATTAAGgagtatataa
 3493905 3493920 [BCE], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [15], [18], [33], [34]
  NarL-Phosphorylated activator nirBp Sigma70 -65.0 -89.0 nirB, nirD, nirC, cysG
gcaatataccCATTAAGGAGTATATAaaggtgaatt
 3493914 3493929 [BCE], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [15], [18], [33], [34]
  NarL-Phosphorylated repressor norVp Sigma54 -78.0 -115.0 norV, norW
gatagtcattTTGACTACTCATTAATgggcataatt
 2832353 2832368 [APIORCISFBSCS], [CV(GEA)], [GEA] [35]
  NarL-Phosphorylated repressor norVp Sigma54 -69.0 -106.0 norV, norW
tttgactactCATTAATGGGCATAATtttatttata
 2832362 2832377 [APIORCISFBSCS], [CV(GEA)], [GEA] [35]
  NarL-Phosphorylated activator nrfAp Sigma70 -79.0 -172.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
gaggaagataCTGACTAACTCTAAAGtggtatttta
 4287584 4287599 [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [18], [19], [34], [36], [37], [38]
  NarL-Phosphorylated activator nrfAp Sigma70 -70.0 -163.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
actgactaacTCTAAAGTGGTATTTTacatgcactt
 4287593 4287608 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [18], [19], [34], [36], [37], [38]
  NarL-Phosphorylated activator nrfAp Sigma70 -50.0 -143.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
tattttacatGCACTTACAATTGATTaaagacaaca
 4287613 4287628 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [18], [19], [34], [36], [38]
  NarL-Phosphorylated repressor nrfAp Sigma70 -50.0 -143.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
tattttacatGCACTTACAATTGATTaaagacaaca
 4287613 4287628 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [18], [19], [34], [36], [38]
  NarL-Phosphorylated repressor nrfAp Sigma70 -22.0 -115.0 nrfA, nrfB, nrfC, nrfD, nrfE, nrfF, nrfG
agacaacattCACAGTGTGGTTATTTgttacacata
 4287641 4287656 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [18], [19], [34], [36], [38]
  NarL-Phosphorylated activator nuoAp2 Sigma70 -122.0 -212.0 nuoA, nuoB, nuoC, nuoE, nuoF, nuoG, nuoH, nuoI, nuoJ, nuoK, nuoL, nuoM, nuoN
gaaagggcatTAAATGCTAATGGTGTtgatattatg
 2405276 2405291 [APIORCISFBSCS], [CV(GEA)], [GEA] [39]
  NarL-Phosphorylated activator ogtp nd -83.0 -131.0 ogt
gacgcgaaacTGGGTACTTACTATTCgttagtcttg
 1400359 1400374 [BPP] [40]
  NarL-Phosphorylated activator ogtp nd -74.0 -122.0 ogt
ctgggtacttACTATTCGTTAGTCTTgccctatcca
 1400350 1400365 [BPP] [40]
  NarL-Phosphorylated activator ogtp nd -50.0 -98.0 ogt
ttgccctatcCACTTATCTTTTTGGTggtatggctg
 1400326 1400341 [BPP] [40]
  NarL-Phosphorylated activator ogtp nd -41.0 -89.0 ogt
ccacttatctTTTTGGTGGTATGGCTgctgatgttg
 1400317 1400332 [BPP] [40]
  NarL-Phosphorylated repressor ompWp nd -18.5 -47.5 ompW
gatcatttgtTACTCCAATGTAGGTATattcgtcacg
 1313965 1313981 [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [15], [38], [41]
  NarL-Phosphorylated repressor torCp Sigma70 nd nd torC, torA, torD
nd
 nd nd [IMP] [42]
  NarL-Phosphorylated repressor ubiCp Sigma70 nd nd ubiC, ubiA
nd
 nd nd [GEA] [43]
  NarL-Phosphorylated activator ydePp Sigma70 nd nd ydeP
nd
 nd nd [BPP], [GEA] [44]
  NarL-Phosphorylated repressor ydhYp Sigma38 -42.0 -207.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
gtaattttaaTTGATAACGATCAATGttaagggctc
 1754676 1754691 [APIORCISFBSCS], [CV(GEA)], [GEA] [45]
  NarL-Phosphorylated repressor ydhYp Sigma38 -16.0 -181.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
ttaagggctcAGAATAATCACATTATtttttctcct
 1754650 1754665 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [45]
  NarL-Phosphorylated repressor ydhYp Sigma38 6.0 -160.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
attattttttCTCCTAACCATAAAGGattagtttat
 1754629 1754644 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [45]
  NarL-Phosphorylated repressor ydhYp Sigma38 15.0 -151.0 ydhY, ydhV, ydhW, ydhX, ydhU, ydhT
tctcctaaccATAAAGGATTAGTTTAtcggcgttaa
 1754620 1754635 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [45]
  NarL-Phosphorylated activator yeaRp Sigma70 -48.0 -94.0 yeaR, yoaG
atggtgctaaAAAGTAACCAATAAATggtatttaaa
 1880034 1880049 [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [40], [46]
  NarL-Phosphorylated activator yeaRp Sigma70 -39.0 -85.0 yeaR, yoaG
aaaagtaaccAATAAATGGTATTTAAaatgcaaatt
 1880025 1880040 [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [40], [46]
  NarL-Phosphorylated repressor ynfEp Sigma70, Sigma38 -23.0 -89.0 ynfE, ynfF, ynfG, ynfH, dmsD
tggattaataATTCTTAACCCAAAATgggtagactc
 1657972 1657987 [AIBSCS], [BPP] [47]
  NarL-Phosphorylated repressor ynfEp Sigma70, Sigma38 -14.0 -80.0 ynfE, ynfF, ynfG, ynfH, dmsD
aattcttaacCCAAAATGGGTAGACTccctctattg
 1657981 1657996 [AIBSCS], [BPP] [47]
  NarL-Phosphorylated activator ytfEp nd -50.0 -76.0 ytfE
gttaaataagCCTCTGCTACGTAAGGgttatagctt
 4432051 4432066 [AIBSCS] [48]
  NarL-Phosphorylated activator ytfEp nd -41.0 -67.0 ytfE
gcctctgctaCGTAAGGGTTATAGCTtttgccttaa
 4432042 4432057 [AIBSCS] [48]


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