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SdiA DNA-binding transcriptional dual regulator

Synonyms: SdiA
Summary:
The transcription factor SdiA, for "Suppressor of the cell division inhibitor," is possibly positively autoregulated and controls the transcription of the genes involved in cell division [1, 6, 7, 8, 9] and acid tolerance [3]. SdiA has been shown to increase transcription from the P2 promoter of the ftsQAZ operon [7] by facilitating RNA polymerase binding to the promoter region [1]. SdiA activates the expression of ydiV, which is involved in the interaction between two quorum-sensing systems. An sdiA ydiV double mutant reduces cAMP levels, which inhibits quorum-sensing system 2 [5]. Expression of sdiA itself is regulated by a mechanism similar to quorum sensing: exposure to conditioned medium results in a 50-80% decrease in sdiA expression [6].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
SdiA Functional   [IE] nd
Evolutionary Family: LuxR/UhpA
Sensing class: External sensing using transported metabolites
Connectivity class: Local Regulator
Gene name: sdiA
  Genome position: 1996110-1996832
  Length: 723 bp / 240 aa
Operon name: sdiA
TU(s) encoding the TF:
Transcription unit        Promoter
sdiA
sdiAp1
sdiA
sdiAp1b
sdiA
sdiAp2
sdiA
sdiAp2b
sdiA
sdiAp3
sdiA
sdiAp4
sdiA
 


Regulon       
Regulated gene(s) ftsA, ftsQ, ftsZ, gadW, gadY, rflP, rmf, rsd
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
cell division (3)
Transcription related (2)
membrane (1)
repressor (1)
antisense RNA (1)
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Regulated operon(s) gadAXW, gadY, mraZ-rsmH-ftsLI-murEF-mraY-murD-ftsW-murGC-ddlB-ftsQAZ-lpxC, rflP, rmf, rsd
First gene in the operon(s) ftsQ, gadW, gadY, rmf, rsd, rflP
Simple and complex regulons ArcA,CRP,McbR,RcdA,SdiA,SlyA,ppGpp
ArcA,McbR,RcdA,SdiA,SlyA
GadW,GadX,H-NS,PhoP,SdiA
GadW,GadX,RcsB,SdiA
SdiA
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Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[SdiA,+](6)
[SdiA,-](2)


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
  SdiA repressor ftsQp Sigma38 -163.5 -451.5 ftsQ, ftsA, ftsZ
tgtgggaatgTCAAAAGTAGTAGCAGAAAatgctctaca
102695 102712 [BPP], [GEA] [1]
  SdiA repressor ftsQp Sigma38 -161.5 -449.5 ftsQ, ftsA, ftsZ
tgggaatgtcAAAAGTAGTAGCAGAAAATgctctacaag
102697 102714 [BPP], [GEA] [1]
  SdiA repressor ftsQp Sigma38 -15.5 -303.5 ftsQ, ftsA, ftsZ
atacgtattcAACCGTCCGGAACCTTCTAtgattatgag
102843 102860 [BPP] [1]
  SdiA repressor ftsQp1 Sigma70 -163.5 -451.5 ftsQ, ftsA, ftsZ
tgtgggaatgTCAAAAGTAGTAGCAGAAAatgctctaca
102695 102712 [BPP], [GEA] [1]
  SdiA repressor ftsQp1 Sigma70 -161.5 -449.5 ftsQ, ftsA, ftsZ
tgggaatgtcAAAAGTAGTAGCAGAAAATgctctacaag
102697 102714 [BPP], [GEA] [1]
  SdiA repressor ftsQp1 Sigma70 -15.5 -303.5 ftsQ, ftsA, ftsZ
atacgtattcAACCGTCCGGAACCTTCTAtgattatgag
102843 102860 [BPP] [1]
  SdiA activator ftsQp2 Sigma38 -36.5 -449.5 ftsQ
tgggaatgtcAAAAGTAGTAGCAGAAAATgctctacaag
102697 102714 [BPP], [GEA] [1]
  SdiA activator gadWp2 nd nd nd gadW nd nd [BPP], [GEA], [IGI] [2], [3]
  SdiA activator gadYp Sigma38 nd nd gadY nd nd [BPP], [GEA], [IGI] [3]
  SdiA activator rmfp nd nd nd rmf nd nd [BPP], [GEA], [IGI] [4]
  SdiA activator rsdp2 Sigma70 nd nd rsd nd nd [BPP], [GEA], [IGI] [4]
  SdiA activator ydiVp Sigma24 -53.0 -120.0 rflP
gataatctaaAAAAAGGACCCCTGAAAAagtggttaac
1792132 1792149 [AIBSCS], [BPP], [GEA] [5]


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




Reference(s)    

 [1] Yamamoto K., Yata K., Fujita N., Ishihama A., 2001, Novel mode of transcription regulation by SdiA, an Escherichia coli homologue of the quorum-sensing regulator., Mol Microbiol 41(5):1187-98

 [2] Dyszel JL., Soares JA., Swearingen MC., Lindsay A., Smith JN., Ahmer BM., 2010, E. coli K-12 and EHEC genes regulated by SdiA., PLoS One 5(1):e8946

 [3] Ma X., Zhang S., Xu Z., Li H., Xiao Q., Qiu F., Zhang W., Long Y., Zheng D., Huang B., Chen C., Lu Y., 2020, SdiA Improves the Acid Tolerance of E. coli by Regulating GadW and GadY Expression., Front Microbiol 11:1078

 [4] Yoshida H., Shimada T., Ishihama A., 2018, Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of Escherichia coli to Stationary Phase., mSystems 3(5)

 [5] Zhou X., Meng X., Sun B., 2008, An EAL domain protein and cyclic AMP contribute to the interaction between the two quorum sensing systems in Escherichia coli., Cell Res 18(9):937-48

 [6] García-Lara J, Shang LH, Rothfield LI, 1996, An extracellular factor regulates expression of sdiA, a transcriptional activator of cell division genes in Escherichia coli., J Bacteriol, 1996 May

 [7] Sitnikov DM., Schineller JB., Baldwin TO., 1996, Control of cell division in Escherichia coli: regulation of transcription of ftsQA involves both rpoS and SdiA-mediated autoinduction., Proc Natl Acad Sci U S A 93(1):336-41

 [8] Wang XD., de Boer PA., Rothfield LI., 1991, A factor that positively regulates cell division by activating transcription of the major cluster of essential cell division genes of Escherichia coli., EMBO J 10(11):3363-72

 [9] Wei Y., Lee JM., Smulski DR., LaRossa RA., 2001, Global impact of sdiA amplification revealed by comprehensive gene expression profiling of Escherichia coli., J Bacteriol 183(7):2265-72

 [10] Michael B., Smith JN., Swift S., Heffron F., Ahmer BM., 2001, SdiA of Salmonella enterica is a LuxR homolog that detects mixed microbial communities., J Bacteriol 183(19):5733-42



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