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    IMD3 isopropylmalate dehydrogenase 3 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 840006, updated on 18-Sep-2024

    Summary

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    Official Symbol
    IMD3
    Official Full Name
    isopropylmalate dehydrogenase 3
    Primary source
    TAIR:AT1G31180
    Locus tag
    AT1G31180
    See related
    Araport:AT1G31180
    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
    Also known as
    ARABIDOPSIS ISOPROPYLMALATE DEHYDROGENASE 3; ATIMD3; F28K20.14; F28K20_14; IPMDH1; ISOPROPYLMALATE DEHYDROGENASE 1; isopropylmalate dehydrogenase 3
    Summary
    The AtIMD3 is one out of 3 genes encoding the enzyme 3-isopropylmalate dehydrogenase involved in leucine biosynthesis in Arabidopsis. Its subcellular location has been targeted to plastids.
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    Genomic context

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    See IMD3 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    8
    Sequence:
    Chromosome: 1; NC_003070.9 (11142461..11144717, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene cytochrome C oxidase biogenesis Cmc1-like protein Neighboring gene myo-inositol monophosphatase like 1 Neighboring gene ncRNA Neighboring gene phloem protein 2-A9

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Structural and functional evolution of isopropylmalate dehydrogenases in the leucine and glucosinolate pathways of Arabidopsis thaliana. He Y, et al. J Biol Chem, 2011 Aug 19. PMID 21697089, Free PMC Article
    2. Functional characterization of Arabidopsis thaliana isopropylmalate dehydrogenases reveals their important roles in gametophyte development. He Y, et al. New Phytol, 2011 Jan. PMID 20840499
    3. Cloning of cDNAs encoding isopropylmalate dehydrogenase from Arabidopsis thaliana and accumulation patterns of their transcripts. Nozawa A, et al. Biosci Biotechnol Biochem, 2005 Apr. PMID 15849421
    4. The plastidic bile acid transporter 5 is required for the biosynthesis of methionine-derived glucosinolates in Arabidopsis thaliana. Gigolashvili T, et al. Plant Cell, 2009 Jun. PMID 19542295, Free PMC Article
    5. High light response of the thylakoid proteome in arabidopsis wild type and the ascorbate-deficient mutant vtc2-2. A comparative proteomics study. Giacomelli L, et al. Plant Physiol, 2006 Jun. PMID 16648217, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. IPMDH2 and IPMDH3 primarily function in leucine biosynthesis, are essential for pollen development and are needed for proper embryo sac development.
      Title: Functional characterization of Arabidopsis thaliana isopropylmalate dehydrogenases reveals their important roles in gametophyte development.
    2. IPMDH is involved in leucine biosynthetic pathway. Three IPMDH ORF sequences designated as AtIMD1, AtIMD2, and AtIMD3 are localized in plastids. AtIMD3 transcripts were found mainly in flowers and cauline leaves. [AtIMD3; IPMDH]
      Title: Cloning of cDNAs encoding isopropylmalate dehydrogenase from Arabidopsis thaliana and accumulation patterns of their transcripts.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_102856.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables 3-isopropylmalate dehydrogenase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables 3-isopropylmalate dehydrogenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 3-isopropylmalate dehydrogenase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    enables 3-isopropylmalate dehydrogenase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables NAD binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in L-leucine biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in L-leucine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within L-leucine biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in L-leucine biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 
    located_in cytosol HDA PubMed 
    NOT located_in cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    located_in plastid IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plastid ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    located_in thylakoid HDA PubMed 

    General protein information

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    Preferred Names
    isopropylmalate dehydrogenase 3
    NP_174403.1
    • isopropylmalate dehydrogenase 3 (IMD3); FUNCTIONS IN: 3-isopropylmalate dehydrogenase activity; INVOLVED IN: leucine biosynthetic process, response to salt stress, metabolic process; LOCATED IN: thylakoid, chloroplast, chloroplast stroma, plastid; EXPRESSED IN: fruit, root, leaf; EXPRESSED DURING: seed development stages; CONTAINS InterPro DOMAIN/s: Isopropylmalate dehydrogenase (InterPro:IPR004429), Isocitrate/isopropylmalate dehydrogenase (InterPro:IPR001804), Isocitrate/isopropylmalate dehydrogenase, conserved site (InterPro:IPR019818); BEST Arabidopsis thaliana protein match is: isopropylmalate dehydrogenase 1 (TAIR:AT5G14200.1); Has 15253 Blast hits to 15253 proteins in 2616 species: Archae - 395; Bacteria - 8280; Metazoa - 576; Fungi - 831; Plants - 243; Viruses - 0; Other Eukaryotes - 4928 (source: NCBI BLink).

    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_003070.9 Reference assembly

      Range
      11142461..11144717 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001332948.1 → NP_001322636.1  isopropylmalate dehydrogenase 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AUM8, A0A5S9WH28, Q8LB97
      Conserved Domains (1) summary
      PLN02329
      Location:16 → 419
      PLN02329; 3-isopropylmalate dehydrogenase

    2. NM_102856.3 → NP_174403.1  isopropylmalate dehydrogenase 3 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_174403.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q1EBW0, Q9SA14
      UniProtKB/TrEMBL
      A0A178W4A1, A0A5S9WH28, Q8LB97
      Conserved Domains (1) summary
      PLN02329
      Location:1 → 404
      PLN02329; 3-isopropylmalate dehydrogenase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SA14.2

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