RegulonDB RegulonDB 10.9:Regulon Page
   

NanR DNA-binding transcriptional dual regulator

Synonyms: NanR-NANA, NanR
Summary:
The genes regulated by NanR, "N-acetyl-neuraminic acid regulator," are involved in N-acetyl-neuraminic acid (or sialic acid) transport and metabolism [1]and in OFF/ON switching of type 1 fimbriation. N-acetylneuraminate (Neu5Ac), which is the most common sialic acid, induces the catabolism of sialic acids operons by directly inactivating NanR [2] converting the predominantly dimeric form of the repressor to an inactive monomer [7] NanR is a member of the FadR/GntR family. Members of this family have two domains, an N-terminal domain with a helix-turn-helix DNA-binding motif and a C-terminal domain with dimerization and effector-binding motifs. Three-dimensional models of the N terminus of FadR and NanR show topological similarities and a ~26% sequence identity between them [1] NanR regulates transcription when it binds to a region of ~30 bp that contains three conserved motifs in tandem.
Read more >


Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
NanR Functional   Apo [APPH], [BPP], [IFC] [1], [2]
NanR-NANA Non-Functional Allosteric Holo [BPP] [2]
Evolutionary Family: GntR
Sensing class: External sensing using transported metabolites
Connectivity class: Local Regulator
Gene name: nanR
  Genome position: 3373698-3374489
  Length: 792 bp / 263 aa
Operon name: nanR
TU(s) encoding the TF:
Transcription unit        Promoter
nanR
 


Regulon       
Regulated gene(s) fimB, nanA, nanC, nanE, nanK, nanM, nanS, nanT, nanX, nanY, yhcH
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
amino sugar conversions (4)
carbon compounds (2)
Porters (Uni-, Sym- and Antiporters) (2)
membrane (2)
fimbri, pili (1)
Read more >
Regulated operon(s) fimB, nanATEK-yhcH, nanCMS, nanXY
First gene in the operon(s) fimB, nanA, nanC, nanX
Simple and complex regulons BasR,DksA,DksA-ppGpp,H-NS,IHF,NagC,NanR,ppGpp
CRP,Fis,NanR
CRP,NagC,NanR
NanR
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[NanR,+](1)
[NanR,-](3)


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
  NanR activator fimBp2 nd -744.5 -1034.5 fimB
actatcttggTGCACCTttatacctgt
4539920 4539925 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [2], [3], [4]
  NanR activator fimBp2 nd -736.5 -1026.5 fimB
ggtgcaccttTATACCTgttataccag
4539928 4539933 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [2], [3], [4]
  NanR activator fimBp2 nd -727.5 -1017.5 fimB
ttatacctgtTATACCAgatcaaaaat
4539937 4539942 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [2], [3], [4]
  NanR repressor nanAp Sigma70 -11.5 -55.5 nanA, nanT, nanE, nanK, yhcH
ttaattgatcTGGTATAacaggtataa
3373629 3373634 [BPP], [GEA], [SM] [1], [5]
  NanR repressor nanAp Sigma70 -2.5 -46.5 nanA, nanT, nanE, nanK, yhcH
ctggtataacAGGTATAaaggtatatc
3373620 3373625 [BPP], [GEA], [SM] [1], [5]
  NanR repressor nanAp Sigma70 6.5 -38.5 nanA, nanT, nanE, nanK, yhcH
acaggtataaAGGTATAtcgtttatca
3373612 3373617 [BPP], [GEA], [SM] [1], [5]
  NanR repressor nanCp nd -11.5 -438.5 nanC, nanM, nanS
atttttgatcTGGTATAacaggtataa
4539937 4539942 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [3], [6]
  NanR repressor nanCp nd -2.5 -429.5 nanC, nanM, nanS
ctggtataacAGGTATAaaggtgcacc
4539928 4539933 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [3], [6]
  NanR repressor nanCp nd 6.5 -421.5 nanC, nanM, nanS
acaggtataaAGGTGCAccaagatagt
4539920 4539925 [APIORCISFBSCS], [BPP], [GEA], [GS], [SM] [3], [6]
  NanR repressor yjhBp2 Sigma32 -393.5 -431.5 nanX, nanY
tttttgatctGGTATAAcaggtataaa
4503624 4503629 [BPP], [GEA], [SM] [7]
  NanR repressor yjhBp2 Sigma32 -384.5 -422.5 nanX, nanY
tggtataacaGGTATAAaggtatacag
4503633 4503638 [BPP], [GEA], [SM] [7]
  NanR repressor yjhBp2 Sigma32 -376.5 -414.5 nanX, nanY
caggtataaaGGTATACagaaaagcaa
4503641 4503646 [BPP], [GEA], [SM] [7]


Alignment and PSSM for NanR TFBSs    

Aligned TFBS of NanR   
  Sequence
  TATACCT
  TATACCT
  TATACCT
  TATACCT
  TATACCT
  TATACCA
  TATACCA
  TATACCA
  TGCACCT

Position weight matrix (PWM). NanR matrix-quality result   
A	0	8	0	9	0	0	3
C	0	0	1	0	9	9	0
G	0	1	0	0	0	0	0
T	9	0	8	0	0	0	6

Consensus   
;	consensus.strict             	TATACCt
;	consensus.strict.rc          	AGGTATA
;	consensus.IUPAC              	TATACCw
;	consensus.IUPAC.rc           	WGGTATA
;	consensus.regexp             	TATACC[at]
;	consensus.regexp.rc          	[AT]GGTATA

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






RegulonDB