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LysR DNA-binding transcriptional dual regulator

Synonyms: LysR
Summary:
Lysine Regulator, LysR, is negatively autoregulated and coordinately activates transcription of the divergent gene which encodes the enzyme that catalyzes the last step in lysine biosynthesis [1, 2, 3]. Activation by LysR requires the presence of diaminopimelic acid [4]. Stragier et al. have proposed that this compound binds directly with LysR [1].
LysR belongs to the family LysR, which contains three domains [5, 6]: an amino-terminal domain that contains a potential helix-turn-helix DNA-binding motif; a central domain, with response domains much less conserved, that possibly are important for coinducer-responsive transcription; and a C-terminal domain that includes the key residues possibly involved in DNA interactions and coinducer response [6]. In systematic studies of oligomerization, it was shown that some members of the LysR family, like LysR, interact with other members of the family to form heterodimers, but the physiological significance of this is unknown [7].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
LysR     nd nd
Evolutionary Family: LysR
Sensing class: Sensing external and internal signals
Connectivity class: Local Regulator
Gene name: lysR
  Genome position: 2979021-2979956
  Length: 936 bp / 311 aa
Operon name: lysR
TU(s) encoding the TF:
Transcription unit        Promoter
lysR
lysRp


Regulon       
Regulated gene(s) lysA, lysR
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
lysine (2)
Transcription related (1)
activator (1)
repressor (1)
operon (1)
Regulated operon(s) lysA, lysR
First gene in the operon(s) lysA, lysR
Simple and complex regulons ArgP,LysR
LysR
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)


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
  LysR activator lysAp Sigma70 nd nd lysA nd nd [GEA] [1]
  LysR repressor lysRp Sigma70 nd nd lysR nd nd [GEA] [2]


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


Evidence    

 [GEA] Gene expression analysis



Reference(s)    

 [1] Stragier P., Richaud F., Borne F., Patte JC., 1983, Regulation of diaminopimelate decarboxylase synthesis in Escherichia coli. I. Identification of a lysR gene encoding an activator of the lysA gene., J Mol Biol. 168(2):307-20

 [2] Stragier P., Patte JC., 1983, Regulation of diaminopimelate decarboxylase synthesis in Escherichia coli. III. Nucleotide sequence and regulation of the lysR gene., J Mol Biol. 168(2):333-50

 [3] Stragier P., Danos O., Patte JC., 1983, Regulation of diaminopimelate decarboxylase synthesis in Escherichia coli. II. Nucleotide sequence of the lysA gene and its regulatory region., J Mol Biol. 168(2):321-31

 [4] Stragier P., Borne F., Richaud F., Richaud C., Patte JC., 1983, Regulatory pattern of the Escherichia coli lysA gene: expression of chromosomal lysA-lacZ fusions., J Bacteriol. 156(3):1198-203

 [5] Henikoff S., Haughn GW., Calvo JM., Wallace JC., 1988, A large family of bacterial activator proteins., Proc Natl Acad Sci U S A. 85(18):6602-6

 [6] Schell MA., 1993, Molecular biology of the LysR family of transcriptional regulators., Annu Rev Microbiol. 47:597-626

 [7] Knapp GS., Hu JC., 2010, Specificity of the E. coli LysR-type transcriptional regulators., PLoS One. 5(12):e15189



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