U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    AT3G53580 diaminopimelate epimerase family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 824526, updated on 15-Feb-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    AT3G53580
    Gene description
    diaminopimelate epimerase family protein
    Primary source
    Araport:AT3G53580
    Locus tag
    AT3G53580
    See related
    TAIR:AT3G53580
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See AT3G53580 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    9
    Sequence:
    Chromosome: 3; NC_003074.8 (19864631..19867134)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene FBD-like domain family protein Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein Neighboring gene serine/threonine-protein kinase AFC1 Neighboring gene LRR receptor-like Serine/Threonine-kinase Neighboring gene ncRNA Neighboring gene miscRNA Neighboring gene ncRNA

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Crystal structure of diaminopimelate epimerase from Arabidopsis thaliana, an amino acid racemase critical for L-lysine biosynthesis. Pillai B, et al. J Mol Biol, 2009 Jan 16. PMID 19013471
    2. Biosynthesis of lysine in plants: evidence for a variant of the known bacterial pathways. Hudson AO, et al. Biochim Biophys Acta, 2005 Jan 18. PMID 15652176
    3. Redox Conformation-Specific Protein-Protein Interactions of the 2-Cysteine Peroxiredoxin in Arabidopsis. Liebthal M, et al. Antioxidants (Basel), 2020 Jun 11. PMID 32545358, Free PMC Article
    4. AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins. Ferro M, et al. Mol Cell Proteomics, 2010 Jun. PMID 20061580, Free PMC Article
    5. Advanced proteomic analyses yield a deep catalog of ubiquitylation targets in Arabidopsis. Kim DY, et al. Plant Cell, 2013 May. PMID 23667124, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Stereochemical control in catalysis is achieved by means of a highly symmetric catalytic site that can accommodate both the L and D stereogenic centers of DAP at the proximal site
      Title: Crystal structure of diaminopimelate epimerase from Arabidopsis thaliana, an amino acid racemase critical for L-lysine biosynthesis.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    NM_115218.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables diaminopimelate epimerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables diaminopimelate epimerase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in lysine biosynthetic process via diaminopimelate IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in chloroplast stroma HDA PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    diaminopimelate epimerase family protein
    NP_190926.1
    • diaminopimelate epimerase family protein; FUNCTIONS IN: diaminopimelate epimerase activity; INVOLVED IN: lysine biosynthetic process via diaminopimelate; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Diaminopimelate epimerase, active site (InterPro:IPR018510), Diaminopimelate epimerase (InterPro:IPR001653); Has 7123 Blast hits to 7119 proteins in 2112 species: Archae - 88; Bacteria - 4300; Metazoa - 6; Fungi - 0; Plants - 62; Viruses - 0; Other Eukaryotes - 2667 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003074.8 Reference assembly

      Range
      19864631..19867134
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_115218.4 → NP_190926.1  diaminopimelate epimerase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190926.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LFG2
      UniProtKB/TrEMBL
      A0A178VGB4, A0A654FFI7
      Conserved Domains (1) summary
      PLN02536
      Location:93 → 362
      PLN02536; diaminopimelate epimerase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LFG2.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Molecular Biology Databases
    Research Materials
    Tools