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    ICDH isocitrate dehydrogenase [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 841875, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ICDH
    Official Full Name
    isocitrate dehydrogenase
    Primary source
    TAIR:AT1G54340
    Locus tag
    AT1G54340
    See related
    Araport:AT1G54340
    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
    F20D21.16; F20D21_16; isocitrate dehydrogenase
    Summary
    NADP-specific isocitrate dehydrogenase (ICDH)
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    Genomic context

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    See ICDH in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    15
    Sequence:
    Chromosome: 1; NC_003070.9 (20283326..20286786)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene LEM3 (ligand-effect modulator 3) family protein / CDC50 family protein Neighboring gene ncRNA Neighboring gene NAC domain containing protein 20 Neighboring gene ABC transporter family protein Neighboring gene ncRNA Neighboring gene TBP-ASSOCIATED FACTOR 6B Neighboring gene sodium hydrogen exchanger 5

    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. Peroxisomal NADP-isocitrate dehydrogenase is required for Arabidopsis stomatal movement. Leterrier M, et al. Protoplasma, 2016 Mar. PMID 25894616
    2. Analysis of cytosolic isocitrate dehydrogenase and glutathione reductase 1 in photoperiod-influenced responses to ozone using Arabidopsis knockout mutants. Dghim AA, et al. Plant Cell Environ, 2013 Nov. PMID 23527794
    3. Cytosolic NADP-dependent isocitrate dehydrogenase contributes to redox homeostasis and the regulation of pathogen responses in Arabidopsis leaves. Mhamdi A, et al. Plant Cell Environ, 2010 Jul. PMID 20199623
    4. Proteome analysis of Arabidopsis leaf peroxisomes reveals novel targeting peptides, metabolic pathways, and defense mechanisms. Reumann S, et al. Plant Cell, 2007 Oct. PMID 17951448, 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 (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. the peroxisomal NADP-ICDH is involved in stomatal movements, suggesting that peroxisomes are a new element in the signaling network of guard cells.
      Title: Peroxisomal NADP-isocitrate dehydrogenase is required for Arabidopsis stomatal movement.
    2. Ozone responses of mutants for cytosolic NADP-isocitrate dehydrogenase (icdh) and glutathione reductase 1 (gr1) were analysed.
      Title: Analysis of cytosolic isocitrate dehydrogenase and glutathione reductase 1 in photoperiod-influenced responses to ozone using Arabidopsis knockout mutants.
    3. ICDH is largely dispensable for Arabidopsis development, and that loss of function does not greatly impact leaf metabolite profiles. Knock-outs show accumulation of defence transcripts in the absence of pathogen attack.
      Title: Cytosolic NADP-dependent isocitrate dehydrogenase contributes to redox homeostasis and the regulation of pathogen responses in Arabidopsis leaves.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001333641.1
    NM_104312.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables NAD binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables isocitrate dehydrogenase (NADP+) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in isocitrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in nucleus HDA PubMed 
    located_in peroxisome HDA PubMed 

    General protein information

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    Preferred Names
    isocitrate dehydrogenase
    NP_175836.1
    • isocitrate dehydrogenase (ICDH); FUNCTIONS IN: NAD or NADH binding, isocitrate dehydrogenase (NADP+) activity, magnesium ion binding, oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor; INVOLVED IN: oxidation reduction, isocitrate metabolic process, metabolic process; LOCATED IN: peroxisome, plasma membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Isocitrate/isopropylmalate dehydrogenase (InterPro:IPR001804), Isocitrate dehydrogenase NADP-dependent, eukaryotic (InterPro:IPR004790), Isocitrate/isopropylmalate dehydrogenase, conserved site (InterPro:IPR019818); BEST Arabidopsis thaliana protein match is: cytosolic NADP+-dependent isocitrate dehydrogenase (TAIR:AT1G65930.1); Has 5270 Blast hits to 5245 proteins in 1162 species: Archae - 45; Bacteria - 1280; Metazoa - 777; Fungi - 225; Plants - 439; Viruses - 0; Other Eukaryotes - 2504 (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
      20283326..20286786
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_104312.3 → NP_175836.1  isocitrate dehydrogenase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_175836.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9SLK0
      UniProtKB/TrEMBL
      A0A5S9WPN6, A0A654EU45
      Conserved Domains (1) summary
      PLN00103
      Location:1 → 409
      PLN00103; isocitrate dehydrogenase (NADP+); Provisional

    2. NM_001333641.1 → NP_001321996.1  isocitrate dehydrogenase [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178WDA3, A0A1P8ASL1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SLK0.1

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