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ttdR DNA-binding transcriptional activator Dan [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947562, updated on 3-Dec-2024
Official Symbol
ttdR
Official Full Name
DNA-binding transcriptional activator Dan
Primary source
ECOCYC:EG12694
Locus tag
b3060
See related
ASAP:ABE-0010045
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
dan; ECK3050; ygiP
Summary
LysR family. [More information is available at EcoGene: EG12694].
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Sequence:
NC_000913.3 (3205324..3206256, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene dihydroneopterin aldolase Neighboring gene putative glycerol-3-phosphate acyltransferase Neighboring gene L(+)-tartrate dehydratase subunit alpha Neighboring gene L(+)-tartrate dehydratase subunit beta Neighboring gene L-tartrate:succinate antiporter

Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Related articles in PubMed

  1. The nucleoid-associated protein Dan organizes chromosomal DNA through rigid nucleoprotein filament formation in E. coli during anoxia. Lim CJ, et al. Nucleic Acids Res, 2013 Jan. PMID 23180762, Free PMC Article
  2. A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions. Teramoto J, et al. Nucleic Acids Res, 2010 Jun. PMID 20156994, Free PMC Article
  3. Identification of the L-tartrate dehydratase genes (ttdA and ttdB) of Escherichia coli and evolutionary relationship with the class I fumarase genes. Reaney SK, et al. J Gen Microbiol, 1993 Jul. PMID 8371115
  4. Regulation of tartrate metabolism by TtdR and relation to the DcuS-DcuR-regulated C4-dicarboxylate metabolism of Escherichia coli. Kim OB, et al. Microbiology (Reading), 2009 Nov. PMID 19661178
  5. Possible new genes as revealed by molecular analysis of a 5-kb Escherichia coli chromosomal region 5' to the rpsU-dnaG-rpoD macromolecular-synthesis operon. Nesin M, et al. Gene, 1987. PMID 3297921

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Dan binds cooperatively along DNA, resulting in formation of a rigid periodic nucleoprotein filament that strongly restricts accessibility to DNA.
    Title: The nucleoid-associated protein Dan organizes chromosomal DNA through rigid nucleoprotein filament formation in E. coli during anoxia.
  2. High abundance and large number of binding sites together indicate that YgiP is a nucleoid-associated protein with both architectural and regulatory roles as the nucleoid proteins Fis and IHF.
    Title: A novel nucleoid protein of Escherichia coli induced under anaerobiotic growth conditions.
  3. Induction of L-tartrate fermentation is regulated by TtdR and L- or meso-tartrate. Expression was repressed by O(2), nitrate and glucose, and positively regulated by TtdR and DcuS.
    Title: Regulation of tartrate metabolism by TtdR and relation to the DcuS-DcuR-regulated C4-dicarboxylate metabolism of Escherichia coli.
Submit: New GeneRIF Correction

Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription activator activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Preferred Names
DNA-binding transcriptional activator Dan

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    3205324..3206256 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417532.1 DNA-binding transcriptional activator Dan [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417532.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A1V2GI20
    Conserved Domains (1) summary
    PRK09801
    Location:1 → 310
    PRK09801; LysR family transcriptional regulator
Nucleotide Protein
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