RegulonDB RegulonDB 10.10: Gene Form
   

tdcR gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

tdcA yhaB tdcR TdcR TdcA FNR FNR IHF CRP terminator anti-terminator anti-anti-terminator TSS_3407 TSS_3407 yhaBp3 yhaBp3 tdcRp8 tdcRp8 tdcRp7 tdcRp7 tdcRp5 tdcRp5 tdcRp4 tdcRp4 tdcRp6 tdcRp6 tdcAp tdcAp

Gene      
Name: tdcR    Texpresso search in the literature
Synonym(s): ECK3108, EG10992, b3119
Genome position(nucleotides): 3267380 --> 3267598 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 28.77
Reference(s): [1] Hagewood BT., et al., 1994
External database links:  
ASAP:
 ABE-0010255
CGSC:
 29692
ECHOBASE:
 EB0985
ECOLIHUB:
 tdcR
OU-MICROARRAY:
 b3119
STRING:
 511145.b3119
COLOMBOS: tdcR


Product      
Name: DNA-binding transcriptional activator TdcR
Synonym(s): TdcR, threonine dehydratase operon activator protein
Sequence: Get amino acid sequence Fasta Format
Regulator Family: TdcR
Cellular location: cytosol
Molecular weight: 8.608
Isoelectric point: 8.331
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization --> 1.1.3 - amino acids
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator
  3 - regulation --> 3.3 - genetic unit regulated --> 3.3.1 - operon
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003677 - DNA binding
biological_process GO:0045893 - positive regulation of transcription, DNA-templated
Note(s): Note(s): ...[more].
Evidence: [IE] Inferred from experiment
Reference(s): [1] Hagewood BT., et al., 1994
[2] Schweizer HP., et al., 1989
[3] Schweizer HP., et al., 1989
External database links:  
ECOCYC:
 PD03292
ECOLIWIKI:
 b3119
PRIDE:
 P11866
REFSEQ:
 NP_417589
UNIPROT:
 P11866


Operon      
Name: tdcR         
Operon arrangement:
Transcription unit        Promoter
tdcR


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 tdcRp6 3267190 forward nd [ICWHO] [4]
  promoter tdcRp4 3267221 forward nd [ICWHO] [4]
  promoter tdcRp5 3267226 forward nd [ICWHO] [4]
  promoter tdcRp7 3267228 forward nd [ICWHO] [4]
  promoter tdcRp8 3267254 forward nd [ICWHO] [4]
  promoter yhaBp3 3267816 forward nd [ICWHO] [4]
  promoter TSS_3407 3268142 reverse nd [RS-EPT-CBR] [5]


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] Hagewood BT., Ganduri YL., Datta P., 1994, Functional analysis of the tdcABC promoter of Escherichia coli: roles of TdcA and TdcR., J Bacteriol 176(20):6214-20

 [2] Schweizer HP., Datta P., 1989, Identification and DNA sequence of tdcR, a positive regulatory gene of the tdc operon of Escherichia coli., Mol Gen Genet 218(3):516-22

 [3] Schweizer HP., Datta P., 1989, The complete nucleotide sequence of the tdc region of Escherichia coli., Nucleic Acids Res 17(10):3994

 [4] 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

 [5] 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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