RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: elaB
Gene(s): elaB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The transcription of elaB is induced in the stationary phase when the cells are growing principally in minimal medium rather than LB medium. elaB expression contributes to cell survival under oxidative and heat shock stress conditions. On the other hand, the deletion of elaB increased the formation of persister cells Guo Y,2017
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: elaBp
+1: 2381053
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 26
Sequence: ttgggatggcacgcgaggtaattcaggcgtaatcaacaacccttgtctatagttagtgacAggttttacgcaaatggagaa
                      -35                     -10           +1                   
Note(s): Zaslaver et al. demonstrated in 2006, by means of a library of fluorescent transcription fusions, that this promoter can be transcribed in vitro Zaslaver A,2006. Based on this, a putative promoter was suggested, but the +1 site of the transcription initiation has not been determined, although there exists promoter activity.
Evidence: [ICA]
[ICWHO]
[IDA]
[IEP]
[RS-EPT-CBR]
[TIM]
Reference(s): [1] Guo Y., et al., 2019
[2] Guo Y., et al., 2017
[3] Salgado H, et al., 2012
[4] Zaslaver A., et al., 2006
TF binding sites (TFBSs)
[OxyR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal OxyR activator elaBp 2381061 2381107 -31.0 cacattgggaTGGCACGCGAGGTAATTCAGGCGTAATCAACAACCCTTGTCTATAGTtagtgacagg nd [GEA], [APIORCISFBSCS], [BPP], [SM] [1]
[OxyR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal OxyR repressor elaBp 2381061 2381107 -31.0 cacattgggaTGGCACGCGAGGTAATTCAGGCGTAATCAACAACCCTTGTCTATAGTtagtgacagg nd [GEA], [APIORCISFBSCS], [BPP], [SM] [1]
[Rob,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd Rob repressor elaBp nd nd nd nd nd [GEA], [BPP] [5]


Evidence    

 [ICA] Inferred by computational analysis

 [ICWHO] Inferred computationally without human oversight

 [IDA] Inferred from direct assay

 [IEP] Inferred from expression pattern

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [SM] Site mutation


Reference(s)    

 [1] Guo Y., Li Y., Zhan W., Wood TK., Wang X., 2019, Resistance to oxidative stress by inner membrane protein ElaB is regulated by OxyR and RpoS., Microb Biotechnol 12(2):392-404

 [2] Guo Y., Liu X., Li B., Yao J., Wood TK., Wang X., 2017, Tail-Anchored Inner Membrane Protein ElaB Increases Resistance to Stress While Reducing Persistence in Escherichia coli., J Bacteriol 199(9)

 [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] Zaslaver A., Bren A., Ronen M., Itzkovitz S., Kikoin I., Shavit S., Liebermeister W., Surette MG., Alon U., 2006, A comprehensive library of fluorescent transcriptional reporters for Escherichia coli., Nat Methods 3(8):623-8

 [5] Wang Z., Xue T., Hu D., Ma Y., 2020, A Novel Butanol Tolerance-Promoting Function of the Transcription Factor Rob in Escherichia coli., Front Bioeng Biotechnol 8:524198

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