RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit       
Name: thrL
Gene(s): thrL   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Gardner JF. 1979
[2] Gardner JF. 1982
Promoter
Name: thrLp
+1: 148
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 42
Sequence: gccgtgagtaaattaaaattttattgacttaggtcactaaatactttaaccaatataggcAtagcgcacagacagataaaa
                        -35                        -10      +1                   
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[IMP]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Gardner JF. 1982
[3] Lynn SP., et al., 1982
[4] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: ggaaacacagAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTTTcgaccaaagg
Reference(s): [1] Gardner JF. 1979
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp activation thrLp   [APPH]
[IEP]
[5]
[6]
Evidence: [APPH] Assay of protein purified to homogeneity
[IEP] Inferred from expression pattern
Reference(s): [5] Lee JH., et al., 2012
[6] Mechold U., et al., 2013


Transcription unit       
Name: thrLABC
Synonym(s): OP00248, thr, thrABC
Gene(s): thrL, thrA, thrB, thrC   Genome Browser M3D Gene expression COLOMBOS
Note(s): The thrLABC operon codes for four enzymes involved in
threonine and homoserine biosynthesis.
thrLABC is regulated in response to the abundance of both
isoleucine and threonine 13959617. Part of this
regulation presumably occurs via attenuation, as thrLABC
contains a leader sequence rich in threonine and isoleucine codons
followed immediately by a functional transcriptional terminator that
acts to prevent transcription of the enzyme-coding genes in the operon Lynn SP,1982. Gardner JF.,1979. 2410621. 1709279.
Evidence: [PM] Polar mutation
Reference(s): [7] Lynn SP., et al., 1987
[8] Parsot C., et al., 1983
[9] Theze J., et al., 1974
Promoter
Name: thrLp
+1: 148
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 42
Sequence: gccgtgagtaaattaaaattttattgacttaggtcactaaatactttaaccaatataggcAtagcgcacagacagataaaa
                        -35                        -10      +1                   
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[IMP]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Gardner JF. 1982
[3] Lynn SP., et al., 1982
[4] Salgado H, et al., 2012
Terminator(s)
Type: rho-independent
Sequence: atctattcatTATCTCAATCAGGCCGGGTTTGCTTTTATGCAGCCCGGCTTTTTTATGAAGAAATtatggagaaa
Reference(s): [10] Feng CQ., et al., 2019
[11] Lesnik EA., et al., 2001
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  DksA-ppGpp activation thrLp   [APPH]
[IEP]
[5]
[6]
Evidence: [APPH] Assay of protein purified to homogeneity
[IEP] Inferred from expression pattern
Reference(s): [5] Lee JH., et al., 2012
[6] Mechold U., et al., 2013


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -20.0 276 311 aacacagaaaAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTTTCgaccaaaggt
  anti-terminator -19.41 244 288 acaggtaacgGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCtgacagtgcg
  anti-anti-terminator -14.5 200 255 tgaaacgcatTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGAcgcgtacagg
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"
REGULATION, RNA cis-regulatory element:  
Rfam type: Cis-reg; leader
Strand: forward
  Description Rfam score Left Pos Right Pos Sequence (RNA-strand)
  Threonine operon leader 122.9 191 310 acaacauccaUGAAACGCAUUAGCACCACCAUUACCACCACCAUCACCAUUACCACAGGUAACGGUGCGGGCUGACGCGUACAGGAAACACAGAAAAAAGCCCGCACCUGACAGUGCGGGCUUUUUUUUUcgaccaaagg
Notes: "The provied "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appears as the reverse complement of the sequence delimited by LeftPos-RightPos"




Reference(s)    

 [1] Gardner JF., 1979, Regulation of the threonine operon: tandem threonine and isoleucine codons in the control region and translational control of transcription termination., Proc Natl Acad Sci U S A 76(4):1706-10

 [2] Gardner JF., 1982, Initiation, pausing, and termination of transcription in the threonine operon regulatory region of Escherichia coli., J Biol Chem 257(7):3896-904

 [3] Lynn SP., Gardner JF., Reznikoff WS., 1982, Attenuation regulation in the thr operon of Escherichia coli K-12: molecular cloning and transcription of the controlling region., J Bacteriol 152(1):363-71

 [4] 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.

 [5] Lee JH., Lennon CW., Ross W., Gourse RL., 2012, Role of the coiled-coil tip of Escherichia coli DksA in promoter control., J Mol Biol 416(4):503-17

 [6] Mechold U., Potrykus K., Murphy H., Murakami KS., Cashel M., 2013, Differential regulation by ppGpp versus pppGpp in Escherichia coli., Nucleic Acids Res 41(12):6175-89

 [7] Lynn SP., Burton WS., Donohue TJ., Gould RM., Gumport RI., Gardner JF., 1987, Specificity of the attenuation response of the threonine operon of Escherichia coli is determined by the threonine and isoleucine codons in the leader transcript., J Mol Biol 194(1):59-69

 [8] Parsot C., Cossart P., Saint-Girons I., Cohen GN., 1983, Nucleotide sequence of thrC and of the transcription termination region of the threonine operon in Escherichia coli K12., Nucleic Acids Res 11(21):7331-45

 [9] Theze J., Saint-Girons I., 1974, Threonine locus of Escherichia coli K-12: genetic structure and evidence for an operon., J Bacteriol 118(3):990-8

 [10] Feng CQ., Zhang ZY., Zhu XJ., Lin Y., Chen W., Tang H., Lin H., 2019, iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators., Bioinformatics 35(9):1469-1477

 [11] Lesnik EA., Sampath R., Levene HB., Henderson TJ., McNeil JA., Ecker DJ., 2001, Prediction of rho-independent transcriptional terminators in Escherichia coli., Nucleic Acids Res 29(17):3583-94


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