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    EDA9 D-3-phosphoglycerate dehydrogenase [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829568, updated on 22-Feb-2019

    Summary

    Gene symbol
    EDA9
    Gene description
    D-3-phosphoglycerate dehydrogenase
    Primary source
    Araport:AT4G34200
    Locus tag
    AT4G34200
    Gene type
    protein coding
    RNA name
    D-3-phosphoglycerate dehydrogenase
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    embryo sac development arrest 9; F10M10.7; PGDH1; phosphoglycerate dehydrogenase 1
    Summary
    Encodes a 3-phosphoglycerate dehydrogenase that is essential for embryo and pollen development.

    Genomic context

    See EDA9 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    4
    Sequence:
    Chromosome: 4; NC_003075.7 (16373731..16376666, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Galactose oxidase/kelch repeat superfamily protein Neighboring gene Cyclase family protein Neighboring gene stress enhanced protein 1 Neighboring gene carbohydrate esterase, putative (DUF303) Neighboring gene SKP1-like 11

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Homology

    • Homologs of the EDA9 gene: The EDA9 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, mouse, rat, chicken, zebrafish, fruit fly, mosquito, C.elegans, M.oryzae, rice, and frog.
    • Orthologs
    NM_119583.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    ATP binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NAD binding IEA
    Inferred from Electronic Annotation
    more info
     
    phosphoglycerate dehydrogenase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    L-serine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    cellular amino acid metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    megagametogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    oxidation-reduction process IEA
    Inferred from Electronic Annotation
    more info
     
    pollen development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    chloroplast IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chloroplast ISM
    Inferred from Sequence Model
    more info
     
    chloroplast stroma IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chloroplast stroma IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    PubMed 
    membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plastid IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    D-3-phosphoglycerate dehydrogenase
    NP_195146.1
    • embryo sac development arrest 9 (EDA9); FUNCTIONS IN: ATP binding; INVOLVED IN: megagametogenesis; LOCATED IN: mitochondrion, chloroplast, membrane; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: D-3-phosphoglycerate dehydrogenase (InterPro:IPR006236), D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain (InterPro:IPR006139), D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding (InterPro:IPR006140), D-3-phosphogylcerate Dehydrogenase (InterPro:IPR015508), Amino acid-binding ACT (InterPro:IPR002912), NAD(P)-binding domain (InterPro:IPR016040); BEST Arabidopsis thaliana protein match is: D-3-phosphoglycerate dehydrogenase (TAIR:AT3G19480.1); Has 30608 Blast hits to 30602 proteins in 2772 species: Archae - 489; Bacteria - 18520; Metazoa - 741; Fungi - 1175; Plants - 586; Viruses - 5; Other Eukaryotes - 9092 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003075.7 Reference assembly

      Range
      16373731..16376666 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119583.4NP_195146.1  D-3-phosphoglycerate dehydrogenase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_195146.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49485
      UniProtKB/TrEMBL
      A0A178UWV4
      Conserved Domains (3) summary
      cd04902
      Location:532603
      ACT_3PGDH-xct; C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH)
      PRK13581
      Location:62603
      PRK13581; D-3-phosphoglycerate dehydrogenase; Provisional
      cd12173
      Location:64366
      PGDH_4; Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains
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