RegulonDB RegulonDB 10.8: Operon Form
   

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




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


Transcription unit          
Name: leuLABCD
Synonym(s): OP00249, leu, leuABCD
Gene(s): leuD, leuC, leuB, leuA, leuL   Genome Browser M3D Gene expression COLOMBOS
Note(s): The leuLABCD operon encodes the enzymes reponsible for the biosynthesis of leucine from valine. It contains
a terminator region following leuL at which transcription
terminates in vitro Wessler SR,1981. Gemmill RM,1983.
This is presumed to be a component of leucine-based
attenuation control of this operon, as the leader peptide contains
a quartet of leucines, and insertions within the leader
disrupt transcription of leuLABCD Vartak NB,1991.
Lrp was previously reported to regulate this operon Lin R,1992, but a later study showed that any Lrp effect
was indirect 10515950.
Evidence: [PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [1] Somers JM., et al., 1973
Promoter
Name: leuLp
+1: 83735
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 27
Sequence: cgggacgtttttattgcgtcagggttgacatccgtttttgtatccagtaactctaaaagcAtatcgcattcatctggagct
                         -35                    -10         +1                   
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Gemmill RM., et al., 1983
[3] Salgado H, et al., 2012
[1] Somers JM., et al., 1973
[4] Stratmann T., et al., 2012
[5] Wessler SR., et al., 1981
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 LeuO activator leuLp nd nd nd nd nd [GEA] [6]
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp activation leuLp   [GEA]
[IEP]
[7]
[8]
Evidence: [GEA] Gene expression analysis
[IEP] Inferred from expression pattern
Reference(s): [7] Durfee T., et al., 2008
[8] Reimers JM., et al., 2004


Transcription unit          
Name: leuL
Gene(s): leuL   Genome Browser M3D Gene expression COLOMBOS
Note(s): The mRNA that contains the leuL gene has been observed mainly in the poles of the cell 31540875.
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [2] Gemmill RM., et al., 1983
[4] Stratmann T., et al., 2012
Promoter
Name: leuLp
+1: 83735
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 27
Sequence: cgggacgtttttattgcgtcagggttgacatccgtttttgtatccagtaactctaaaagcAtatcgcattcatctggagct
                         -35                    -10         +1                   
Evidence: [CV(RS-EPT-CBR)]
[CV(TIM)]
[HIPP]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Gemmill RM., et al., 1983
[3] Salgado H, et al., 2012
[1] Somers JM., et al., 1973
[4] Stratmann T., et al., 2012
[5] Wessler SR., et al., 1981
Terminator(s)
Type: rho-independent
Sequence: ttcgggcataAAAAAACCCGCGCAATGGCGCGGGTTTTTTgtttgactgc
Reference(s): [5] Wessler SR., et al., 1981
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 LeuO activator leuLp nd nd nd nd nd [GEA] [6]
Allosteric regulation of RNA-polymerase
  Regulator Function Promoter target of RNApol Growth Conditions Note Evidence Reference
  ppGpp activation leuLp   [GEA]
[IEP]
[7]
[8]
Evidence: [GEA] Gene expression analysis
[IEP] Inferred from expression pattern
Reference(s): [7] Durfee T., et al., 2008
[8] Reimers JM., et al., 2004


Transcription unit       
Name: leuLABCD
Gene(s): leuD, leuC, leuB, leuA, leuL   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [4] Stratmann T., et al., 2012
Promoter
Name: leuLp2
+1: 84024
Distance from start of the gene: 316
Sequence: taattaatttatatatttaatgcattaattcttaacattaattgatcaataatattcaccAaatcaatatcaaaaaaaatc
Evidence: [TIM]
Reference(s): [4] Stratmann T., et al., 2012


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -16.9 83571 83600 gtcaaacaaaAAACCCGCGCCATTGCGCGGGTTTTTTTAtgcccgaagc
  anti-terminator -19.72 83591 83655 catcttctttGCGCGGTAGACGAGTGAGCGGCATCCAGCATTAAGCCAGCACGCAGTCAAACAAAAAACCCGCGccattgcgcg
  anti-anti-terminator -14.5 83635 83686 gttcgctttaTCGGTCTACTACTACTAAACGCATCTTCTTTGCGCGGTAGACGAGTGAGCGgcatccagca
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: reverse
  Description Rfam score Left Pos Right Pos Sequence (RNA-strand)
  Leucine operon leader 145.2 83573 83722 ucgcauucauCUGGAGCUGAUUUAAUGACUCACAUCGUUCGCUUUAUCGGUCUACUACUACUAAACGCAUCUUCUUUGCGCGGUAGACGAGUGAGCGGCAUCCAGCAUUAAGCCAGCACGCAGUCAAACAAAAAACCCGCGCCAUUGCGCGGGUUUUUUUaugcccgaag
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] Somers JM., Amzallag A., Middleton RB., 1973, Genetic fine structure of the leucine operon of Escherichia coli K-12., J Bacteriol 113(3):1268-72

 [2] Gemmill RM., Jones JW., Haughn GW., Calvo JM., 1983, Transcription initiation sites of the leucine operons of Salmonella typhimurium and Escherichia coli., J Mol Biol 170(1):39-59

 [3] 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.

 [4] Stratmann T., Pul U., Wurm R., Wagner R., Schnetz K., 2012, RcsB-BglJ activates the Escherichia coli leuO gene, encoding an H-NS antagonist and pleiotropic regulator of virulence determinants., Mol Microbiol 83(6):1109-23

 [5] Wessler SR., Calvo JM., 1981, Control of leu operon expression in Escherichia coli by a transcription attenuation mechanism., J Mol Biol 149(4):579-97

 [6] Chen CC., Fang M., Majumder A., Wu HY., 2001, A 72-base pair AT-rich DNA sequence element functions as a bacterial gene silencer., J Biol Chem 276(12):9478-85

 [7] Durfee T., Hansen AM., Zhi H., Blattner FR., Jin DJ., 2008, Transcription profiling of the stringent response in Escherichia coli., J Bacteriol 190(3):1084-96

 [8] Reimers JM., Schmidt KH., Longacre A., Reschke DK., Wright BE., 2004, Increased transcription rates correlate with increased reversion rates in leuB and argH Escherichia coli auxotrophs., Microbiology 150(Pt 5):1457-66


RegulonDB