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CsqR DNA-binding transcriptional repressor

Synonyms: CsqR, CsqR-6-sulfo-D-quinovose
CsqR, formerly known as YihW and hypothesized to be a transcriptional regulator [2], functions as a repressor for genes of catabolism of sulfoquinovose (SQ), a hydrolysis product of sulfoquinovosyl diacylglycerol (SQDG) [1]. CsqR belongs to the DeoR family of transcription factors. It acts as a carbon source-dependent dual regulator involved in sustaining baseline growth in the absence of the lac operon [3]. CsqR is likely involved in regulation of lactose metabolism and functions either in a complementary or opposite manner to a global regulator of carbohydrate metabolism, cAMP-CRP, and functions as a sugar-dependent dual regulator [3]. CsqR is part of a cluster of genes involved in degradation of sulfoquinovose (SQ); see the |FRAME: PWY-7446| pathway. The activity of the CsqR transcriptional regulator is controlled by SQ and sulfoquinovosyl glycerol (SQG) during the exponential growth phase. Both SQ and SQG act as inducers for the yihUTS operon and yihV gene, and also for csqR expression [1]. It was determined by Genomic SELEX screening that CsqR binds strongly only between yihV-csqR (squV-csqR) and yihUTS (squUTS) operons, and CsqR binds with minor strength close to the trxB, yeaC, hyfB, and accC genes [4].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
CsqR Functional   Apo nd nd
CsqR-6-sulfo-D-quinovose Non-Functional   Holo nd nd
TFBs symmetry: inverted-repeat
Connectivity class: Local Regulator
Gene name: csqR
  Genome position: 4074669-4075454
  Length: 786 bp / 261 aa
Operon name: yihV-csqR
TU(s) encoding the TF:
Transcription unit        Promoter

Regulated gene(s) csqR, yihS, yihT, yihU, yihV
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
carbon compounds (4)
Transcription related (1)
repressor (1)
regulon (1)
detoxification (1)
Regulated operon(s) yihUTS, yihV-csqR
First gene in the operon(s) yihU, yihV, csqR
Simple and complex regulons CRP,CsqR
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)

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
  CsqR repressor csqRp Sigma70 nd nd csqR nd nd [GEA], [BPP] [1]
  CsqR repressor yihUp5 Sigma70 -11.0 -103.0 yihU, yihT, yihS
4073662 4073687 [BPP], [CV(GEA/GS)], [GEA], [GS], [BPP], [GS] [1]
  CsqR repressor yihVp1 Sigma70 -38.0 -65.0 yihV, csqR
4073662 4073687 [GEA], [BPP], [GS] [1]

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