RegulonDB RegulonDB 11.1: 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 e14 prophage; C0293 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
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 49.84
External database links:  
ASAP:
 ABE-0003990
ECHOBASE:
 EB1478
ECOLIHUB:
 ycgB
OU-MICROARRAY:
 b1188
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 Comment
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:  
ALPHAFOLD:
 P29013
DIP:
 DIP-11550N
ECOCYC:
 EG11516-MONOMER
ECOLIWIKI:
 b1188
INTERPRO:
 IPR007390
PANTHER:
 PTHR30029
PFAM:
 PF04293
PRIDE:
 P29013
REFSEQ:
 NP_415706
SMR:
 P29013
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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