RegulonDB RegulonDB 11.2: Operon Form
   

sbmA-yaiW operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: sbmA-yaiW
Gene(s): sbmA, yaiW   Genome Browser M3D Gene expression COLOMBOS
Note(s): sbmA expression was increased in a tolC mutant, and it was completely σE dependent, in a micF-independent manner Corbalan NS,2010 This upregulation could be caused by the alteration in outer membrane permeability, suggesting a potential coparticipation of both TolC and SbmA in order to solve a physiological problem in which the transport of SbmA-specific substrate could be necessary. On the other hand, it seems that sbmA is governed by another alternative regulation pathway, because it is well known that stress stimuli may activate multiple stress responses Corbalan NS,2010
Under NlpE outer membrane lipoprotein overexpression, the transcription of the sbmA gene is increased by CpxR Raivio TL,2013
Evidence: [EXP-IEP-COREGULATION] Inferred through co-regulation
Reference(s): [1] Rhodius VA., et al., 2005
Promoter
Name: sbmAp
+1: 396553
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 86
Sequence: tcgaaacaattcttatggtcaggctggcgaactaagcgccttgctatgggtcacaatgggCggtttcatttggctgacgct
                             -35                   -10      +1                   
Note(s): The transcriptional start site of the sbmAp promoter was also determined by Rhodius VA,2005, and it was different by 1 bp from the one characterized by Rezuchova B,2003.
This promoter appears to be induced in two phases after σE induction. It is induced during the first 5 minutes following σE induction, decreased from 5 to 10 minutes, induced from 10 to 15 minutes, and decreased from 15 to 20 minutes Lacoux C,2020.
Evidence: [COMP-AINF]
[COMP-AINF-POSITIONAL-IDENTIFICATION]
[COMP-AINF-SIMILAR-TO-CONSENSUS]
[COMP-HINF-POSITIONAL-IDENTIFICATION]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[EXP-IEP]
Reference(s): [2] Corbalan NS., et al., 2010
[3] Huerta AM., et al., 2003
[4] Rezuchova B., et al., 2003
[1] Rhodius VA., et al., 2005
TF binding sites (TFBSs)
[CpxR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd CpxR-phosphorylated activator sbmAp nd nd nd nd nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS] W [5]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

 [COMP-HINF-POSITIONAL-IDENTIFICATION] Human inference of promoter position

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IEP] Inferred from expression pattern

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis


Reference(s)    

 [1] Rhodius VA., Suh WC., Nonaka G., West J., Gross CA., 2005, Conserved and variable functions of the sigmaE stress response in related genomes., PLoS Biol 4(1):e2

 [2] Corbalan NS., Adler C., de Cristobal RE., Pomares MF., Delgado MA., Vincent PA., 2010, The tolC locus affects the expression of sbmA through σE activity increase., FEMS Microbiol Lett 311(2):185-92

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] Rezuchova B., Miticka H., Homerova D., Roberts M., Kormanec J., 2003, New members of the Escherichia coli sigmaE regulon identified by a two-plasmid system., FEMS Microbiol Lett 225(1):1-7

 [5] Raivio TL., Leblanc SK., Price NL., 2013, The Escherichia coli Cpx envelope stress response regulates genes of diverse function that impact antibiotic resistance and membrane integrity., J Bacteriol 195(12):2755-67

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