U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    mdh1aa malate dehydrogenase 1Aa, NAD (soluble) [ Danio rerio (zebrafish) ]

    Gene ID: 399662, updated on 12-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    mdh1aaprovided by ZNC
    Official Full Name
    malate dehydrogenase 1Aa, NAD (soluble)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040204-1
    See related
    Ensembl:ENSDARG00000017772 AllianceGenome:ZFIN:ZDB-GENE-040204-1
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    MDH1; mdhA; mdh1a; fj05b08; zgc:63941; wu:fj05b08
    Summary
    This gene encodes an enzyme that catalyzes the NAD/NADH-dependent, reversible oxidation of malate to oxaloacetate in many metabolic pathways, including the citric acid cycle. Teleost fish express two cytosolic isozymes: one is ubiquitously expressed and the other is expressed predominantly in the eye and skeletal muscle. This gene encodes the ubiquitously expressed isozyme. Alternatively spliced transcript variants have been found for this gene. A recent study showed that a C-terminally extended isoform is produced by use of an alternative in-frame translation termination codon via a stop codon readthrough mechanism, and that this isoform is localized in the peroxisomes. A paralog of this gene is found on chromosome 17. [provided by RefSeq, Sep 2017]
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See mdh1aa in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (50968908..50990889)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (50325109..50347090)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene GPRIN family member 3b Neighboring gene orthodenticle homeobox 2a Neighboring gene UDP-glucose pyrophosphorylase 2a Neighboring gene spastin

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Evolution of the vertebrate cytosolic malate dehydrogenase gene family: duplication and divergence in actinopterygian fish. Merrit TJ, et al. J Mol Evol, 2003 Mar. PMID 12612830
    2. Proteome profile of zebrafish Danio rerio olfactory bulb based on two-dimensional gel electrophoresis matrix-assisted laser desorption/ionization MS/MS analysis. Singh SK, et al. Zebrafish, 2011 Dec. PMID 22181661
    3. Slc25a17 acts as a peroxisomal coenzyme A transporter and regulates multiorgan development in zebrafish. Kim YI, et al. J Cell Physiol, 2020 Jan. PMID 31187491
    4. Ribosomal readthrough at a short UGA stop codon context triggers dual localization of metabolic enzymes in Fungi and animals. Stiebler AC, et al. PLoS Genet, 2014 Oct. PMID 25340584, Free PMC Article
    5. Gene expression analysis of zebrafish melanocytes, iridophores, and retinal pigmented epithelium reveals indicators of biological function and developmental origin. Higdon CW, et al. PLoS One, 2013. PMID 23874447, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables L-malate dehydrogenase (NAD+) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables L-malate dehydrogenase (NAD+) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables L-malate dehydrogenase (NAD+) activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables malate dehydrogenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in NADH metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within carboxylic acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in malate metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within malate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in oxaloacetate metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tricarboxylic acid cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within tricarboxylic acid cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    malate dehydrogenase 1Aa, NAD (soluble)
    Names
    MDH1b
    malate dehydrogenase 1a, NAD (soluble)
    NP_001296452.1
    NP_001303854.1
    NP_956241.2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001309523.2 → NP_001296452.1  malate dehydrogenase 1Aa, NAD (soluble) isoform 2 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon, which results in translation initiation from an in-frame upstream start codon compared to variant 1. The encoded isoform (2) is longer, with a distinct N-terminus compared to isoform mdh1.
      Source sequence(s)
      AW281579, AW281946, BC053158, BM036011
      UniProtKB/TrEMBL
      A0A2R9YJL1, A0A8M1P7P1, E7EZF9, Q7T3D9
      Related
      ENSDARP00000015862.8, ENSDART00000012842.9
      Conserved Domains (2) summary
      cd01336
      Location:20 → 345
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases
      PRK05442
      Location:21 → 343
      PRK05442; malate dehydrogenase; Provisional

    2. NM_001316925.1 → NP_001303854.1  malate dehydrogenase 1Aa, NAD (soluble) isoform mdh1x

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript and encodes two isoforms, which result from the use of alternative in-frame translation termination codons. The shorter isoform (mdh1) results from translation termination at the upstream UGA stop codon, while the longer isoform (mdh1x) results from UGA stop codon readthrough to the downstream UAA termination codon. This RefSeq represents the longer, C-terminally extended isoform (mdh1x), which is localized in the peroxisomes. As the UGA stop codon has been reported to specify several alternative amino acids (tryptophan, cysteine, arginine and serine), its location in the longer isoform is denoted by an 'X'.
      Source sequence(s)
      AW281946, BC053158, EG578573
      UniProtKB/TrEMBL
      A0A8M1P861, E7EZF9, Q7T3D9
      Conserved Domains (2) summary
      cd01336
      Location:3 → 328
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases
      PRK05442
      Location:1 → 326
      PRK05442; malate dehydrogenase; Provisional

    3. NM_199947.3 → NP_956241.2  malate dehydrogenase 1Aa, NAD (soluble) isoform mdh1

      See identical proteins and their annotated locations for NP_956241.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript and encodes two isoforms, which result from the use of alternative in-frame translation termination codons. The shorter isoform (mdh1) results from translation termination at the upstream UGA stop codon, while the longer isoform (mdh1x) results from UGA stop codon readthrough to the downstream UAA termination codon. This RefSeq represents the shorter isoform (mdh1), which is localized in the cytosol.
      Source sequence(s)
      AW281946, BC053158, EG578573
      UniProtKB/TrEMBL
      E7EZF9, Q6TNT0, Q7T3D9, Q801E6
      Related
      ENSDARP00000023121.9, ENSDART00000022290.11
      Conserved Domains (2) summary
      cd01336
      Location:3 → 328
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases
      PRK05442
      Location:1 → 326
      PRK05442; malate dehydrogenase; Provisional

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007112.7 Reference GRCz11 Primary Assembly

      Range
      50968908..50990889
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools