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    PMDH2 peroxisomal NAD-malate dehydrogenase 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830825, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PMDH2
    Official Full Name
    peroxisomal NAD-malate dehydrogenase 2
    Primary source
    TAIR:AT5G09660
    Locus tag
    AT5G09660
    See related
    Araport:AT5G09660
    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
    F17I14.150; F17I14_150; peroxisomal NAD-malate dehydrogenase 2
    Summary
    encodes a microbody NAD-dependent malate dehydrogenase encodes an peroxisomal NAD-malate dehydrogenase that is involved in fatty acid beta-oxidation through providing NAD to the process of converting fatty acyl CoA to acetyl CoA.
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    Genomic context

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    See PMDH2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    8
    Sequence:
    Chromosome: 5; NC_003076.8 (2993411..2995784, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene serine carboxypeptidase-like 19 Neighboring gene pyrophosphorylase 6 Neighboring gene tRNA-Val Neighboring gene loricrin-like protein Neighboring gene reduced lateral root formation Neighboring gene magnesium transporter 7

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Peroxisomal malate dehydrogenase is not essential for photorespiration in Arabidopsis but its absence causes an increase in the stoichiometry of photorespiratory CO2 release. Cousins AB, et al. Plant Physiol, 2008 Oct. PMID 18685043, Free PMC Article
    2. Arabidopsis peroxisomal malate dehydrogenase functions in beta-oxidation but not in the glyoxylate cycle. Pracharoenwattana I, et al. Plant J, 2007 May. PMID 17376163
    3. A novel, non-redox-regulated NAD-dependent malate dehydrogenase from chloroplasts of Arabidopsis thaliana L. Berkemeyer M, et al. J Biol Chem, 1998 Oct 23. PMID 9774405
    4. Protein disulfide isomerase-2 of Arabidopsis mediates protein folding and localizes to both the secretory pathway and nucleus, where it interacts with maternal effect embryo arrest factor. Cho EJ, et al. Mol Cells, 2011 Nov. PMID 21909944, Free PMC Article
    5. 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

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Mutation of pmdh1 and pmdh2 causes somewhat reduced photosynthesis but increases the amount of CO2 released during photorespiration.
      Title: Peroxisomal malate dehydrogenase is not essential for photorespiration in Arabidopsis but its absence causes an increase in the stoichiometry of photorespiratory CO2 release.
    2. The function of PEROXISOMAL NAD-MALATE DEHYDROGENASE 1 and PEROXISOMAL NAD-MALATE DEHYDROGENASE 2 in fatty acid beta-oxidation and the glyoxylate cycle in Arabidopsis are reported.
      Title: Arabidopsis peroxisomal malate dehydrogenase functions in beta-oxidation but not in the glyoxylate cycle.
    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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    Markers

    Homology

    NM_001036783.1
    NM_001085087.2
    NM_001125727.1
    NM_001343054.1
    NM_121003.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables L-malate dehydrogenase (NAD+) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables malate dehydrogenase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in carboxylic acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in malate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of fatty acid beta-oxidation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of fatty acid beta-oxidation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of fatty acid beta-oxidation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of photorespiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of photorespiration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in apoplast HDA PubMed 
    located_in chloroplast HDA PubMed 
    located_in chloroplast envelope HDA PubMed 
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in microbody ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    located_in peroxisome HDA PubMed 
    located_in peroxisome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plant-type vacuole HDA PubMed 
    located_in plasma membrane HDA PubMed 

    General protein information

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    Preferred Names
    peroxisomal NAD-malate dehydrogenase 2
    NP_001031860.1
    • peroxisomal NAD-malate dehydrogenase 2 (PMDH2); FUNCTIONS IN: malate dehydrogenase activity; INVOLVED IN: regulation of fatty acid beta-oxidation, regulation of photorespiration; LOCATED IN: apoplast, chloroplast, peroxisome, vacuole, microbody; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Lactate/malate dehydrogenase, C-terminal (InterPro:IPR022383), Malate dehydrogenase, NAD-dependent, eukaryote/gamma proteobacteria (InterPro:IPR010097), NAD(P)-binding domain (InterPro:IPR016040), L-lactate/malate dehydrogenase (InterPro:IPR001557), Lactate/malate dehydrogenase, N-terminal (InterPro:IPR001236), Malate dehydrogenase, active site (InterPro:IPR001252), Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal (InterPro:IPR015955); BEST Arabidopsis thaliana protein match is: peroxisomal NAD-malate dehydrogenase 1 (TAIR:AT2G22780.1); Has 17207 Blast hits to 17205 proteins in 5456 species: Archae - 235; Bacteria - 12094; Metazoa - 1213; Fungi - 536; Plants - 740; Viruses - 0; Other Eukaryotes - 2389 (source: NCBI BLink).
    NP_001078556.1
    • peroxisomal NAD-malate dehydrogenase 2 (PMDH2); FUNCTIONS IN: malate dehydrogenase activity; INVOLVED IN: regulation of fatty acid beta-oxidation, regulation of photorespiration; LOCATED IN: apoplast, chloroplast, peroxisome, microbody; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Lactate/malate dehydrogenase, C-terminal (InterPro:IPR022383), Malate dehydrogenase, NAD-dependent, eukaryote/gamma proteobacteria (InterPro:IPR010097), NAD(P)-binding domain (InterPro:IPR016040), L-lactate/malate dehydrogenase (InterPro:IPR001557), Lactate/malate dehydrogenase, N-terminal (InterPro:IPR001236), Malate dehydrogenase, active site (InterPro:IPR001252), Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal (InterPro:IPR015955); BEST Arabidopsis thaliana protein match is: peroxisomal NAD-malate dehydrogenase 1 (TAIR:AT2G22780.1); Has 16823 Blast hits to 16821 proteins in 5415 species: Archae - 235; Bacteria - 11979; Metazoa - 1199; Fungi - 507; Plants - 555; Viruses - 0; Other Eukaryotes - 2348 (source: NCBI BLink).
    NP_001119199.1
    • peroxisomal NAD-malate dehydrogenase 2 (PMDH2); FUNCTIONS IN: malate dehydrogenase activity; INVOLVED IN: regulation of fatty acid beta-oxidation, regulation of photorespiration; LOCATED IN: apoplast, chloroplast, peroxisome, microbody; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Lactate/malate dehydrogenase, C-terminal (InterPro:IPR022383), Malate dehydrogenase, NAD-dependent, eukaryote/gamma proteobacteria (InterPro:IPR010097), NAD(P)-binding domain (InterPro:IPR016040), L-lactate/malate dehydrogenase (InterPro:IPR001557), Lactate/malate dehydrogenase, N-terminal (InterPro:IPR001236), Malate dehydrogenase, active site (InterPro:IPR001252), Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal (InterPro:IPR015955); BEST Arabidopsis thaliana protein match is: peroxisomal NAD-malate dehydrogenase 1 (TAIR:AT2G22780.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_196528.1
    • peroxisomal NAD-malate dehydrogenase 2 (PMDH2); FUNCTIONS IN: malate dehydrogenase activity; INVOLVED IN: regulation of fatty acid beta-oxidation, regulation of photorespiration; LOCATED IN: in 6 components; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Lactate/malate dehydrogenase, N-terminal (InterPro:IPR001236), Lactate/malate dehydrogenase, C-terminal (InterPro:IPR022383), NAD(P)-binding domain (InterPro:IPR016040), Malate dehydrogenase, NAD-dependent, eukaryote/gamma proteobacteria (InterPro:IPR010097), L-lactate/malate dehydrogenase (InterPro:IPR001557), Malate dehydrogenase, active site (InterPro:IPR001252), Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal (InterPro:IPR015955); BEST Arabidopsis thaliana protein match is: peroxisomal NAD-malate dehydrogenase 1 (TAIR:AT2G22780.1); Has 17070 Blast hits to 17068 proteins in 5416 species: Archae - 235; Bacteria - 12016; Metazoa - 1211; Fungi - 533; Plants - 741; Viruses - 0; Other Eukaryotes - 2334 (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_003076.8 Reference assembly

      Range
      2993411..2995784 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121003.4 → NP_196528.1  peroxisomal NAD-malate dehydrogenase 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196528.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q93ZA7, Q9ZP05
      UniProtKB/TrEMBL
      A0A178UMW0, A0A5S9Y2S0
      Conserved Domains (1) summary
      PLN00106
      Location:31 → 347
      PLN00106; malate dehydrogenase

    2. NM_001343054.1 → NP_001330735.1  peroxisomal NAD-malate dehydrogenase 2 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BBQ0

    3. NM_001125727.1 → NP_001119199.1  peroxisomal NAD-malate dehydrogenase 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001119199.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      B3H560
      Conserved Domains (2) summary
      cd01337
      Location:43 → 301
      MDH_glyoxysomal_mitochondrial; Glyoxysomal and mitochondrial malate dehydrogenases
      PLN00106
      Location:31 → 300
      PLN00106; malate dehydrogenase

    4. NM_001085087.2 → NP_001078556.1  peroxisomal NAD-malate dehydrogenase 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078556.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A8MRP1
      Conserved Domains (2) summary
      cd01337
      Location:22 → 280
      MDH_glyoxysomal_mitochondrial; Glyoxysomal and mitochondrial malate dehydrogenases
      PLN00106
      Location:10 → 279
      PLN00106; malate dehydrogenase

    5. NM_001036783.1 → NP_001031860.1  peroxisomal NAD-malate dehydrogenase 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001031860.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4KDZ4
      Conserved Domains (2) summary
      cd01337
      Location:22 → 331
      MDH_glyoxysomal_mitochondrial; Glyoxysomal and mitochondrial malate dehydrogenases
      PLN00106
      Location:10 → 326
      PLN00106; malate dehydrogenase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ZP05.1

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