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StpA DNA-binding transcriptional repressor

Synonyms: StpA
StpA protein, for Suppressor of td phenotype A, is a nucleoid-associated multifunctional protein |CITS:[10551881][10947847]| that acts as a transcriptional repressor |CITS:[16980475]|, in chromosomal DNA packaging |CITS:[ 22187157]|, and as a chaperone |CITS:[17267410][15849314]|.When StpA binds DNA, it is able to form a rigid filament, and thus the access to DNA is blocked |CITS:[ 22187157]|. This protein is negatively autoregulated |CITS:[16980475]| and it is involved in the %Beta;-glucoside utilization systems |CITS:[16980475][11737635][9473058]| and the homologous recombination and repair of bleomycin damage |CITS:[17991999]|. Gueun%e'; et al. suggested that StpA may regulate the expression of a tributyltin-inducible operon |CITS:[18245262]|. Currently, no inducer for this regulator has been reported in the literature. New genes may be identified by high-throughput analysis |CITS:[19151137]|.
It is a DNA-binding protein with similarity to H-NS |CITS:[7961433][1480493]|, and these two proteins can have similar functions |CITS:[10515926][10947847]|. It has an approximately fivefold-greater affinity for DNA than H-NS and has a preference for curved DNA |CITS:[11278075]|. This regulator binds curved DNA, in the promoter region, with AT-rich motifs, and StpA binds to sites that have poorly related sequences and it does not have a consensus sequence for the DNA binding.
Expression of stpA from a plasmid can complement an hns mutant phenotype and StpA is able to repress and activate a subset of H-NS-regulated genes, but their specific mechanisms remain to be determined |CITS:[7961433][11278075][8890170][8635467][19151137][8890170]|.
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
StpA     nd nd
Evolutionary Family: HNS
Connectivity class: Local Regulator
Gene name: stpA
  Genome position: 2798091-2798495
  Length: 405 bp / 134 aa
Operon name: stpA
TU(s) encoding the TF:
Transcription unit        Promoter

Regulated gene(s) bglB, bglF, bglG, fau, leuO, ssrS, stpA
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
carbon compounds (3)
Transcription related (2)
activator (2)
operon (2)
posttranslational modification (1)
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Regulated operon(s) bglGFB, leuO, ssrS-fau, stpA
First gene in the operon(s) bglG, bglG, leuO, ssrS, ssrS, ssrS, ssrS, stpA
Simple and complex regulons CRP,Fis,H-NS,LeuO,RcsB-BglJ,StpA
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
  StpA repressor bglGp nd nd nd bglG, bglF, bglB nd nd [GEA] [1], [2]
  StpA repressor leuOp2 nd nd nd leuO nd nd [GEA] [3]
  StpA repressor ssrSp1 Sigma70 nd nd ssrS, fau nd nd [BPP], [GEA] [4]
  StpA repressor ssrSp2 Sigma38 nd nd ssrS, fau nd nd [BPP], [GEA] [4]
  StpA repressor stpAp1 Sigma70 nd nd stpA nd nd [GEA] [1]

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


 [GEA] Gene expression analysis

 [BPP] Binding of purified proteins


 [1] Gueune H., Durand MJ., Thouand G., DuBow MS., 2008, The ygaVP genes of Escherichia coli form a tributyltin-inducible operon., Appl Environ Microbiol. 74(6):1954-8

 [2] Venkatesh GR., Kembou Koungni FC., Paukner A., Stratmann T., Blissenbach B., Schnetz K., 2010, BglJ-RcsB heterodimers relieve repression of the Escherichia coli bgl operon by H-NS., J Bacteriol. 192(24):6456-64

 [3] Stratmann T., Pul ¿¿., Wurm R., Wagner R., Schnetz K., 2012, RcsB-BglJ activates the Escherichia coli leuO gene, encoding an H-NS antagonist and pleiotropic regulator of virulence determinants., Mol Microbiol. 83(6):1109-23

 [4] Neusser T., Gildehaus N., Wurm R., Wagner R., 2008, Studies on the expression of 6S RNA from E. coli: involvement of regulators important for stress and growth adaptation., Biol Chem. 389(3):285-97