RegulonDB RegulonDB 10.8: Gene Form
   

ycgB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ycgB dadA fadR Lrp Lrp Lrp CRP CRP Lrp CRP Lrp Lrp Lrp Lrp Lrp Lrp Lrp terminator dadAp3 dadAp3 dadAp2 dadAp2 dadAp1 dadAp1 ycgBp ycgBp TSS_1516 TSS_1516 TSS_1515 TSS_1515 TSS_1514 TSS_1514 TSS_1513 TSS_1513

Gene      
Name: ycgB    Texpresso search in the literature
Synonym(s): ECK1176, EG11516, b1188
Genome position(nucleotides): 1235709 <-- 1237241 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
49.84
External database links:  
ASAP:
ABE-0003990
ECHOBASE:
EB1478
OU-MICROARRAY:
b1188
PortEco:
ycgB
STRING:
511145.b1188
COLOMBOS: ycgB


Product      
Name: PF04293 family protein YcgB
Synonym(s): YcgB
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 60.814
Isoelectric point: 5.868
Motif(s):
 
Type Positions Sequence
19 -> 450 DWTFDLLDVYLAEIDRVAKLYRLDTYPHQIEVITSEQMMDAYSSVGMPINYPHWSFGKKFIETERLYKHGQQGLAYEIVINSNPCIAYLMEENTITMQALVMAHACYGHNSFFKNNYLFRSWTDASSIVDYLIFARKYITECEERYGVDEVERLLDSCHALMNYGVDRYKRPQKISLQEEKARQKSREEYLQSQVNMLWRTLPKREEEKTVAEARRYPSEPQENLLYFMEKNAPLLESWQREILRIVRKVSQYFYPQKQTQVMNEGWATFWHYTILNHLYDEGKVTERFMLEFLHSHTNVVFQPPYNSPWYSGINPYALGFAMFQDIKRICQSPTEEDKYWFPDIAGSDWLETLHFAMRDFKDESFISQFLSPKVMRDFRFFTVLDDDRHNYLEISAIHNEEGYREIRNRLSSQYNLSNLEPNIQIWNVDLR

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
biological_process GO:0006974 - cellular response to DNA damage stimulus
Note(s): Note(s): ...[more].
Reference(s): [1] Andres Leon E., et al., 2009
External database links:  
DIP:
DIP-11550N
ECOCYC:
EG11516-MONOMER
ECOLIWIKI:
b1188
INTERPRO:
IPR007390
PANTHER:
PTHR30029
PFAM:
PF04293
PRIDE:
P29013
REFSEQ:
NP_415706
UNIPROT:
P29013


Operon      
Name: ycgB         
Operon arrangement:
Transcription unit        Promoter
ycgB


RNA cis-regulatory element    
Attenuation: Translational


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_1513 1236798 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_1514 1236840 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_1515 1237036 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_1516 1237229 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] Andres Leon E., Ezkurdia I., Garcia B., Valencia A., Juan D., 2009, EcID. A database for the inference of functional interactions in E. coli., Nucleic Acids Res 37(Database issue):D629-35

 [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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