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    dapF diaminopimelate epimerase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948364, updated on 17-Dec-2024

    Summary

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    Official Symbol
    dapF
    Official Full Name
    diaminopimelate epimerase
    Primary source
    ECOCYC:EG10209
    Locus tag
    b3809
    See related
    ASAP:ABE-0012442
    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
    ECK3804
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    Genomic context

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    Sequence:
    NC_000913.3 (3994762..3995586)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene frataxin CyaY Neighboring gene protein YzcX Neighboring gene putative lipoprotein YifL Neighboring gene DUF484 domain-containing protein YigA Neighboring gene site-specific tyrosine recombinase Neighboring gene 5-amino-6-(5-phospho-D-ribitylamino)uracil phosphatase

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. 2-(4-Amino-4-carboxybutyl)aziridine-2-carboxylic acid. A potent irreversible inhibitor of diaminopimelic acid epimerase. Spontaneous formation from alpha-(halomethyl)diaminopimelic acids. Gerhart F, et al. J Med Chem, 1990 Aug. PMID 2197412
    2. Molecular cloning, characterization, and chromosomal localization of dapF, the Escherichia coli gene for diaminopimelate epimerase. Richaud C, et al. J Bacteriol, 1987 Apr. PMID 3031013, Free PMC Article
    3. Analogs of diaminopimelic acid as inhibitors of meso-diaminopimelate dehydrogenase and LL-diaminopimelate epimerase. Lam LK, et al. J Biol Chem, 1988 Aug 25. PMID 3042781
    4. Nucleotide sequence of the dapF gene and flanking regions from Escherichia coli K12. Richaud C, et al. Nucleic Acids Res, 1988 Nov 11. PMID 3057443, Free PMC Article
    5. Purification and properties of diaminopimelic acid epimerase from Escherichia coli. Wiseman JS, et al. J Biol Chem, 1984 Jul 25. PMID 6378903

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Structural studies show that DapF potentiates RppH dependent RNA degradation in two ways.
      Title: Structural and kinetic insights into stimulation of RppH-dependent RNA degradation by the metabolic enzyme DapF.
    2. The data suggest that the cellular level of DapF is a critical factor regulating the RppH-catalyzed pyrophosphate removal and the subsequent degradation of target mRNAs.
      Title: RppH-dependent pyrophosphohydrolysis of mRNAs is regulated by direct interaction with DapF in Escherichia coli.
    3. Dimerization of bacterial diaminopimelate epimerase is essential for catalysis
      Title: Dimerization of bacterial diaminopimelate epimerase is essential for catalysis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables diaminopimelate epimerase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables diaminopimelate epimerase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables diaminopimelate epimerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables diaminopimelate epimerase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables enzyme activator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables isomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in lysine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lysine biosynthetic process via diaminopimelate IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lysine biosynthetic process via diaminopimelate IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    diaminopimelate epimerase
    NP_418254.2

    NCBI Reference Sequences (RefSeq)

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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
      3994762..3995586
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_418254.2 diaminopimelate epimerase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_418254.2

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A0H2Z4B8, A0A1X3IUP6, A0A1X3JAF2, A0A829L7L5, A0A979GZY0, A0AAN3M7L5, C3SKE2, F4T657, Q1R4C5
      Conserved Domains (1) summary
      PRK00450
      Location:1 → 274
      dapF; diaminopimelate epimerase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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