RegulonDB RegulonDB 10.9: Operon Form
   

rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: rpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ
Gene(s): rpsQ, rpmC, rplP, rpsC, rplV, rpsS, rplB, rplW, rplD, rplC, rpsJ   Genome Browser M3D Gene expression COLOMBOS
Evidence: [TAS] Traceable author statement
Reference(s): [1] Olins PO., et al., 1981
[2] Zurawski G., et al., 1985
Promoter
Name: rpsJp
+1: 3453442
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 172
Sequence: aggctgtttactttactagcaatacgcttgcgttcggtggttaagtatgtataatgcgcgGgcttgtcgtagttgacagca
                            -35                   -10       +1                   
Evidence: [ICWHO]
[RPF]
Reference(s): [3] Huerta AM., et al., 2003
[1] Olins PO., et al., 1981
Terminator(s)
Type: rho-independent
Sequence: gaaaaaataaACGGCTCATTTCTGAGCCGtttattcgta
Reference(s): [4] Cerretti DP., et al., 1983
Type: rho-independent
Sequence: tattttataaACGAAAATGATTACTCCTCAGACCCATTACGATTGATGGGAGAGTGTAACCGTTCTTACGTagctccccga
Reference(s): [5] Sha Y., et al., 1995
TF binding sites (TFBSs)
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd ArcA-Phosphorylated1 repressor rpsJp nd nd nd nd nd [BPP], [GEA], [IGI] [7]
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd FNR1 activator rpsJp nd nd nd nd nd [BPP], [GEA], [IGI] [6]
Note(s): 1Salmon et al. Salmon KA,2005 identified a putative ArcA-binding site upstream of the rpsJp promoter, but the sequence was not reported.1Under anaerobiosis, FNR represses rpsJ gene expression, but it is not known if this regulation is direct or indirect Salmon K,2003. We assigned this regulation to the rrpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ operon because it is known that the rpsJ gene is transcribed as a part of this operon.1Under anaerobiosis, FNR represses rpsJ gene expression, but it is not known if this regulation is direct or indirect Salmon K,2003. We assigned this regulation to the rrpsJ-rplCDWB-rpsS-rplV-rpsC-rplP-rpmC-rpsQ operon because it is known that the rpsJ gene is transcribed as a part of this operon.
2Salmon et al. Salmon KA,2005 identified a putative ArcA-binding site upstream of the rpsJp promoter, but the sequence was not reported.
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp inhibition rpsJp nd Together ppGpp and DksA can inhibit more strongly the transcription initiation from the ribosomal protein promoter in vitro and in vivo Lemke JJ,2011 [APPH]
[GEA]
[IMP]
[8]
Evidence: [APPH] Assay of protein purified to homogeneity
[GEA] Gene expression analysis
[IMP] Inferred from mutant phenotype
Reference(s): [8] Lemke JJ., et al., 2011




Reference(s)    

 [1] Olins PO., Nomura M., 1981, Regulation of the S10 ribosomal protein operon in E. coli: nucleotide sequence at the start of the operon., Cell 26(2 Pt 2):205-11

 [2] Zurawski G., Zurawski SM., 1985, Structure of the Escherichia coli S10 ribosomal protein operon., Nucleic Acids Res 13(12):4521-6

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] Cerretti DP., Dean D., Davis GR., Bedwell DM., Nomura M., 1983, The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene., Nucleic Acids Res 11(9):2599-616

 [5] Sha Y., Lindahl L., Zengel JM., 1995, Role of NusA in L4-mediated attenuation control of the S10 r-protein operon of Escherichia coli., J Mol Biol 245(5):474-85

 [6] Salmon K., Hung SP., Mekjian K., Baldi P., Hatfield GW., Gunsalus RP., 2003, Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR., J Biol Chem 278(32):29837-55

 [7] Salmon KA., Hung SP., Steffen NR., Krupp R., Baldi P., Hatfield GW., Gunsalus RP., 2005, Global gene expression profiling in Escherichia coli K12: effects of oxygen availability and ArcA., J Biol Chem 280(15):15084-96

 [8] Lemke JJ., Sanchez-Vazquez P., Burgos HL., Hedberg G., Ross W., Gourse RL., 2011, Direct regulation of Escherichia coli ribosomal protein promoters by the transcription factors ppGpp and DksA., Proc Natl Acad Sci U S A 108(14):5712-7


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