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

Gene ID: 948364, updated on 2-May-2024

Summary

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Gene symbol
dapF
Gene description
diaminopimelate epimerase
Primary source
ASAP:ABE-0012442
Locus tag
b3809
See related
ECOCYC:EG10209
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. Purification and properties of diaminopimelic acid epimerase from Escherichia coli. Wiseman JS, et al. J Biol Chem, 1984 Jul 25. PMID 6378903
  2. 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
  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. 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
  5. Expression of recombinant diaminopimelate epimerase in Escherichia coli. Isolation and inhibition with an irreversible inhibitor. Higgins W, et al. Eur J Biochem, 1989 Dec 8. PMID 2689171

See all (20) 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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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
    A0A0E1SVK1, A0A0H2Z4B8, A0A1X3IUP6, A0A1X3JAF2, A0A827XU12, A0A829L7L5, A0A979GZY0, C3SKE2, D6IG44, D8ADV2, E1ITF7, E1J5X0, E6BNN0, F4T657, F4TMG9, F4V8D0, F4VLD4, Q1R4C5, V0ABU2
    Conserved Domains (1) summary
    PRK00450
    Location:1 → 274
    dapF; diaminopimelate epimerase; Provisional
Nucleotide Protein
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