RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit       
Name: ldcC
Gene(s): ldcC   Genome Browser M3D Gene expression COLOMBOS
Note(s): RpoS-dependent expression at stationary phase has been described Kikuchi Y,1998. In addition to RpoS, it appears that ldcC expression is also induced by another sigma factors, because in the presence of antibiotic and the absence of RpoS, ldcC expression is induced Akhova A,.
Fluoroquinolones and -lactams increased ldcC expression, while an aminoglycoside (amikacin) decreased such expression Akhova A,.
Evidence: [EXP-IDA-BOUNDARIES-DEFINED] Boundaries of transcription experimentally identified
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] Kikuchi Y., et al., 1998
[2] Lemonnier M., et al., 1998
[3] Yamamoto Y., et al., 1997
Promoter
Name: ldcCp
+1: Unknown
Sigma Factor: Sigma38 Sigmulon
Note(s): The ldcC -35 and -10 promoter sequences have been described in Yamamoto Y,1997 and Kikuchi Y,1998 as being close to the translational start site, even though the +1 for transcription has not been determined. In addition to the experimental evidence, the -10 sequence (TATGAT) in the ldcC promoter is specific for RpoS (σ38) Kikuchi Y,1998.
Evidence: [AS-TAS]
[EXP-IEP]
[EXP-IMP]
Reference(s): [4] Akhova A., et al., null
[5] Kikuchi Y., et al., 1997
[1] Kikuchi Y., et al., 1998
[3] Yamamoto Y., et al., 1997


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: forward
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -16.6 209599 209626 gttctgaaaaAGGGTCACTTCGGTGGCCCTTTTTTATcgccacggtt
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"


Evidence    

 [AS-TAS] Traceable author statement

 [EXP-IEP] Inferred from expression pattern

 [EXP-IMP] Inferred from mutant phenotype


Reference(s)    

 [1] Kikuchi Y., Kurahashi O., Nagano T., Kamio Y., 1998, RpoS-dependent expression of the second lysine decarboxylase gene in Escherichia coli., Biosci Biotechnol Biochem 62(6):1267-70

 [2] Lemonnier M., Lane D., 1998, Expression of the second lysine decarboxylase gene of Escherichia coli., Microbiology 144 ( Pt 3):751-60

 [3] Yamamoto Y., Miwa Y., Miyoshi K., Furuyama J., Ohmori H., 1997, The Escherichia coli ldcC gene encodes another lysine decarboxylase, probably a constitutive enzyme., Genes Genet Syst 72(3):167-72

 [4] Akhova A., Nesterova L., Shumkov M., Tkachenko A., null, Cadaverine biosynthesis contributes to decreased Escherichia coli susceptibility to antibiotics., Res Microbiol 172(7-8):103881

 [5] Kikuchi Y., Kojima H., Tanaka T., Takatsuka Y., Kamio Y., 1997, Characterization of a second lysine decarboxylase isolated from Escherichia coli., J Bacteriol 179(14):4486-92

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