RegulonDB RegulonDB 10.7:Regulon Page

YjjQ DNA-binding transcriptional repressor

Synonyms: YjjQ
YjjQ is a transcriptional repressor of genes required for flagellar synthesis, capsule formation, and other genes related to virulence [3] Repression is mediated by binding to a palindromic DNA motif. Episomal expression of yjjQ inhibits motility and biofilm formation [3] YjjQ harbors a FixJ/NarL-type C-terminal helix-turn-helix DNA-binding domain [4]. YjjQ may play a role in detoxification of methylglyoxal (MG) and dihydroxyacetone (DHA) [1]. YjjQ belongs to the LuxR family of transcriptional regulators. The orthologous protein in avian pathogenic E. coli [5] and in Salmonella enterica serovar Typhimurium [6] may play a role in virulence. A yjjQ insertion mutant increases the sensitivity of a gloA mutant to MG and DHA.
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
YjjQ Functional   [AIFS], [IDA], [IEP], [IMP] [1], [2], [3]
Evolutionary Family: LuxR/UhpA
Connectivity class: Local Regulator
Gene name: yjjQ
  Genome position: 4603477-4604202
  Length: 726 bp / 241 aa
Operon name: yjjQ-bglJ
TU(s) encoding the TF:
Transcription unit        Promoter

Regulated gene(s) dgcN, flhC, flhD, gfcA, ompC, ybhL, yciX, yfiB, yfiR, ymiA
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
motility, chemotaxis, energytaxis (aerotaxis, redoxtaxis etc) (4)
flagellum (2)
Transcription related (2)
activator (2)
repressor (2)
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Regulated operon(s) flhDC, gfcA, ompC, ybhL, yfiR-dgcN-yfiB, ymiA-yciX
First gene in the operon(s) flhD, ompC, ybhL, gfcA, ymiA, yfiR
Simple and complex regulons AcrR,CRP,FliZ,Fur,H-NS,HdfR,IHF,LrhA,MatA,OmpR,QseB,RcsAB,YjjQ
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
  YjjQ repressor flhDp Sigma70 11.0 -188.0 flhD, flhC
1978378 1978392 [AIBSCS], [GEA], [SM] [3]
  YjjQ repressor gfcAp Sigma70 -49.0 -1007.0 gfcA
1050744 1050758 [AIBSCS], [GEA] [3]
  YjjQ repressor gfcAp Sigma70 -16.0 -974.0 gfcA
1050711 1050725 [AIBSCS], [GEA], [SM] [3]
  YjjQ repressor ompCp1 Sigma70 -64.0 -145.0 ompC
2312887 2312901 [AIBSCS], [GEA] [3]
  YjjQ repressor ybhLp Sigma70 2.0 -25.0 ybhL
819852 819866 [AIBSCS], [GEA] [3]
  YjjQ repressor yfiRp Sigma70 -65.0 -116.0 yfiR, dgcN, yfiB
2741752 2741766 [AIBSCS], [GEA] [3]
  YjjQ repressor ymiAp Sigma70 -6.0 -64.0 ymiA, yciX
1335077 1335091 [AIBSCS], [GEA] [3]

Alignment and PSSM for YjjQ TFBSs    

Aligned TFBS of YjjQ   

Position weight matrix (PWM). YjjQ matrix-quality result   
A	0	7	6	0	7	1	1	0	1	1	0	1	0	6	1	3	0	0
C	0	0	0	1	0	0	0	0	0	2	7	1	2	0	0	2	1	3
G	0	0	1	6	0	0	1	0	1	0	0	0	0	0	0	1	2	0
T	7	0	0	0	0	6	5	7	5	4	0	5	5	1	6	1	4	4

;	consensus.strict             	TAaGAttTttCttatatc
;	consensus.strict.rc          	GATATAAGAAAAATCTTA
;	consensus.IUPAC              	TAaGAttTtyCtyatmky
;	consensus.IUPAC.rc           	RMKATRAGRAAAATCTTA
;	consensus.regexp             	TAaGAttTt[ct]Ct[ct]at[ac][gt][ct]
;	consensus.regexp.rc          	[AG][AC][GT]AT[AG]AG[AG]AAAATCTTA

PWM logo   


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


 [AIFS] Automated inference of function from sequence

 [IDA] Inferred from direct assay

 [IEP] Inferred from expression pattern

 [IMP] Inferred from mutant phenotype

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [GEA] Gene expression analysis

 [SM] Site mutation


 [1] Kim I., Kim J., Min B., Lee C., Park C., 2007, Screening of genes related to methylglyoxal susceptibility., J Microbiol 45(4):339-43

 [2] Perez-Rueda E., Collado-Vides J., Segovia L., 2004, Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea., Comput Biol Chem 28(5-6):341-50

 [3] Wiebe H., Gurlebeck D., Gross J., Dreck K., Pannen D., Ewers C., Wieler LH., Schnetz K., 2015, YjjQ Represses Transcription of flhDC and Additional Loci in Escherichia coli., J Bacteriol 197(16):2713-20

 [4] 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

 [5] Li G, Laturnus C, Ewers C, Wieler LH, 2005, Identification of genes required for avian Escherichia coli septicemia by signature-tagged mutagenesis., Infect Immun, 2005 May

 [6] Lawley TD, Chan K, Thompson LJ, Kim CC, Govoni GR, Monack DM, 2006, Genome-wide screen for Salmonella genes required for long-term systemic infection of the mouse., PLoS Pathog, 2006 Feb

 [7] Stratmann T., Madhusudan S., Schnetz K., 2008, Regulation of the yjjQ-bglJ operon, encoding LuxR-type transcription factors, and the divergent yjjP gene by H-NS and LeuO., J Bacteriol 190(3):926-35