RegulonDB RegulonDB 10.8: Gene Form
   

ydcK gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

tehA ydcK rimL ydcH tehB NsrR NsrR terminator anti-terminator anti-anti-terminator terminator TSS_1811 TSS_1811 TSS_1810 TSS_1810 TSS_1809 TSS_1809 ydcKp8 ydcKp8 tehAp tehAp rimLp rimLp

Gene      
Name: ydcK    Texpresso search in the literature
Synonym(s): ECK1421, G6741, b1428
Genome position(nucleotides): 1499469 <-- 1500449 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
48.42
External database links:  
ASAP:
ABE-0004765
ECHOBASE:
EB3517
OU-MICROARRAY:
b1428
PortEco:
ydcK
STRING:
511145.b1428
COLOMBOS: ydcK


Product      
Name: putative enzyme YdcK
Synonym(s): YdcK
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 35.849
Isoelectric point: 4.876
Motif(s):
 
Type Positions Sequence
169 -> 186 AQIYGDAVVRYAFIEHRA

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0016740 - transferase activity
GO:0016746 - transferase activity, transferring acyl groups
Note(s): Note(s): ...[more].
Reference(s): [1] Paradis-Bleau C., et al., 2014
External database links:  
DIP:
DIP-11647N
ECOCYC:
G6741-MONOMER
ECOLIWIKI:
b1428
INTERPRO:
IPR011004
INTERPRO:
IPR040831
PFAM:
PF18836
PRIDE:
P76100
REFSEQ:
NP_415945
SMR:
P76100
SWISSMODEL:
P76100
UNIPROT:
P76100


Operon      
Name: ydcK         
Operon arrangement:
Transcription unit        Promoter
ydcK


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 ydcKp8 1500640 reverse Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter TSS_1809 1501349 forward nd [RS-EPT-CBR] [3]
  promoter TSS_1810 1501486 forward nd [RS-EPT-CBR] [3]
  promoter TSS_1811 1501538 forward nd [RS-EPT-CBR] [3]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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



Reference(s)    

 [1] Paradis-Bleau C., Kritikos G., Orlova K., Typas A., Bernhardt TG., 2014, A genome-wide screen for bacterial envelope biogenesis mutants identifies a novel factor involved in cell wall precursor metabolism., PLoS Genet 10(1):e1004056

 [2] 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

 [3] 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.


RegulonDB