RegulonDB RegulonDB 10.8: Operon Form
   

rpsT operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: rpsT
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit       
Name: rpsT
Gene(s): rpsT   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[LTED] Length of transcript experimentally determined
Reference(s): [1] Coburn GA., et al., 1998
[2] Mackie GA. 1992
[3] Mackie GA. 1986
Promoter
Name: rpsTp2
+1: 21120
Distance from start of the gene: 42
Sequence: taacggcgcttatttgcacaaatccattgacaaaagaaggctaaaagggcatattcctcgGcctttgaattgtccatatag
Note(s): The rpsT gene is transcribed by two promoters (rpsTp1 and rpsTp2) that can function independently and additively Mackie GA,1983
Evidence: [CV(RPF)]
[CV(RPF/RS-EPT-CBR)]
[CV(RPF/TIM)]
[CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RPF]
[RS-EPT-CBR]
[TIM]
Reference(s): [4] Mackie GA. 1981
[5] Mackie GA., et al., 1983
[6] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: cataaaaaaaCCCGCTTGCGCGGGctttttcaca
Reference(s): [3] Mackie GA. 1986
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp inhibition rpsTp2 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]
[7]
Evidence: [APPH] Assay of protein purified to homogeneity
[GEA] Gene expression analysis
[IMP] Inferred from mutant phenotype
Reference(s): [7] Lemke JJ., et al., 2011


Transcription unit       
Name: rpsT
Gene(s): rpsT   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[LTED] Length of transcript experimentally determined
Reference(s): [1] Coburn GA., et al., 1998
[2] Mackie GA. 1992
[3] Mackie GA. 1986
Promoter
Name: rpsTp1
+1: 21210
Distance from start of the gene: 132
Sequence: tgctgcaatttttatcgcggaaaagctgtattcacaccccgcaagctggtagaatcctgcGccatcactacgtaacgagtg
Note(s): The rpsT gene is transcribed by two promoters (rpsTp1 and rpsTp2) that can function independently and additively Mackie GA,1983
Evidence: [CV(RPF)]
[CV(RPF/TIM)]
[CV(TIM)]
[HIPP]
[RPF]
[TIM]
Reference(s): [4] Mackie GA. 1981
[5] Mackie GA., et al., 1983
Terminator(s)
Type: rho-independent
Sequence: cataaaaaaaCCCGCTTGCGCGGGctttttcaca
Reference(s): [3] Mackie GA. 1986
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp inhibition rpsTp1 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]
[7]
Evidence: [APPH] Assay of protein purified to homogeneity
[GEA] Gene expression analysis
[IMP] Inferred from mutant phenotype
Reference(s): [7] Lemke JJ., et al., 2011


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -9.0 21166 21192 tacgtaacgaGTGCCGGCACATTAACGGCGCTTATTtgcacaaatc
  anti-terminator -10.7 21185 21226 caccccgcaaGCTGGTAGAATCCTGCGCCATCACTACGTAACGAGTGCCGGcacattaacg
  anti-anti-terminator -7.0 21210 21255 caatttttatCGCGGAAAAGCTGTATTCACACCCCGCAAGCTGGTAGAATCCTGCgccatcacta
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"




Reference(s)    

 [1] Coburn GA., Mackie GA., 1998, Reconstitution of the degradation of the mRNA for ribosomal protein S20 with purified enzymes., J Mol Biol 279(5):1061-74

 [2] Mackie GA., 1992, Secondary structure of the mRNA for ribosomal protein S20. Implications for cleavage by ribonuclease E., J Biol Chem 267(2):1054-61

 [3] Mackie GA., 1986, Structure of the DNA distal to the gene for ribosomal protein S20 in Escherichia coli K12: presence of a strong terminator and an IS1 element., Nucleic Acids Res 14(17):6965-81

 [4] Mackie GA., 1981, Nucleotide sequence of the gene for ribosomal protein S20 and its flanking regions., J Biol Chem 256(15):8177-82

 [5] Mackie GA., Parsons GD., 1983, Tandem promoters in the gene for ribosomal protein S20., J Biol Chem 258(12):7840-6

 [6] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [7] 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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