RegulonDB RegulonDB 10.7: Gene Form
   

ybfE gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ybfF fldA ybfE LexA SoxS ybfEp ybfEp fldAp fldAp TSS_821 TSS_821

Gene      
Name: ybfE    Texpresso search in the literature
Synonym(s): ECK0673, EG11775, b0685
Genome position(nucleotides): 711605 <-- 711898 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
53.74
External database links:  
ASAP:
ABE-0002335
ECHOBASE:
EB1724
OU-MICROARRAY:
b0685
PORTECO:
ybfE
REGULONDB:
b0685
STRING:
511145.b0685
M3D: ybfE
COLOMBOS: ybfE
PortEco: b0685


Product      
Name: ribbon-helix-helix domain-containing protein YbfE
Synonym(s): LexA-regulated protein, YbfE
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 11.28
Isoelectric point: 10.847
Motif(s):
 
Type Positions Sequence
52 -> 88 RVELKLNAEAVEALNELAESRNMSRSELIEEMLMQQL

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0005515 - protein binding
biological_process GO:0006355 - regulation of transcription, DNA-templated
GO:0006974 - cellular response to DNA damage stimulus
Note(s): Note(s): ...[more].
Evidence: [IE] Inferred from experiment
Reference(s): [1] Fernandez De Henestrosa AR., et al., 2000
External database links:  
ECOCYC:
EG11775-MONOMER
ECOLIWIKI:
b0685
INTERPRO:
IPR002145
INTERPRO:
IPR010985
PFAM:
PF01402
PRIDE:
P0AAU7
PROTEINMODELPORTAL:
P0AAU7
REFSEQ:
NP_415211
UNIPROT:
P0AAU7


Operon      
Name: ybfE         
Operon arrangement:
Transcription unit        Promoter
ybfE


Transcriptional Regulation      
Display Regulation             
Repressed by: LexA


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_821 711001 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] Fernandez De Henestrosa AR., Ogi T., Aoyagi S., Chafin D., Hayes JJ., Ohmori H., Woodgate R., 2000, Identification of additional genes belonging to the LexA regulon in Escherichia coli., Mol Microbiol 35(6):1560-72

 [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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