RegulonDB RegulonDB 10.8: Gene Form
   

shoB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ryfB yfhL shoB ohsC OhsC ohsCp ohsCp TSS_2854 TSS_2854 shoBp shoBp

Gene      
Name: shoB    Texpresso search in the literature
Synonym(s): ECK4502, G0-10634, b4681, b4687, ryfB, yphI
Genome position(nucleotides): 2700117 <-- 2700197 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 37.04
External database links:  
PortEco:
 shoB
STRING:
 511145.b4687
COLOMBOS: shoB


Product      
Name: toxic peptide ShoB
Synonym(s): RyfB, ShoB, YphI
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 3.103
Isoelectric point: 10.248
Motif(s):
 
Type Positions Sequence
6 -> 26 YLIKRVIKIIIAVLQLILLFL

 
Classification:
Multifun Terms (GenProtEC)  
  5 - cell processes
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
biological_process GO:0012501 - programmed cell death
Note(s): Note(s): ...[more].
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [1] Fozo EM., et al., 2008
External database links:  
ECOCYC:
 MONOMER0-2860
PRIDE:
 C1P611
PRODB:
 PRO_000023948
REFSEQ:
 YP_002791251
UNIPROT:
 C1P611


Operon      
Name: shoB         
Operon arrangement:
Transcription unit        Promoter
shoB


Regulation by small RNA    
  Display Regulation
small RNA ohsC


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_2854 2700336 reverse nd [RS-EPT-CBR] [2]


Evidence    

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


Reference(s)    

 [1] Fozo EM., Kawano M., Fontaine F., Kaya Y., Mendieta KS., Jones KL., Ocampo A., Rudd KE., Storz G., 2008, Repression of small toxic protein synthesis by the Sib and OhsC small RNAs., Mol Microbiol 70(5):1076-93

 [2] 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.

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