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    mdh1ab malate dehydrogenase 1Ab, NAD (soluble) [ Danio rerio (zebrafish) ]

    Gene ID: 335715, updated on 9-Dec-2024

    Summary

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    Official Symbol
    mdh1abprovided by ZNC
    Official Full Name
    malate dehydrogenase 1Ab, NAD (soluble)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7655
    See related
    Ensembl:ENSDARG00000103849 AllianceGenome:ZFIN:ZDB-GENE-030131-7655
    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; mdhB; mdh1b; fk59d03; zgc:56234; wu:fk59d03
    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 1. [provided by RefSeq, Sep 2017]
    Annotation information
    Annotation category: suggests misassembly
    Orthologs
    all
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    Genomic context

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    See mdh1ab in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (24439135..24444357)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (24421153..24425956)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene EH domain binding protein 1 Neighboring gene uncharacterized LOC108179765 Neighboring gene orthodenticle homeobox 1 Neighboring gene WD repeat containing planar cell polarity effector Neighboring gene UDP-glucose pyrophosphorylase 2b Neighboring gene pellino E3 ubiquitin protein ligase 1b Neighboring gene uncharacterized LOC137488099

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: 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

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    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. Transcriptome analyses of 7-day-old zebrafish larvae possessing a familial Alzheimer's disease-like mutation in psen1 indicate effects on oxidative phosphorylation, ECM and MCM functions, and iron homeostasis. Dong Y, et al. BMC Genomics, 2021 Mar 24. PMID 33761877, Free PMC Article
    3. Genetic compensation in a stable slc25a46 mutant zebrafish: A case for using F0 CRISPR mutagenesis to study phenotypes caused by inherited disease. Buglo E, et al. PLoS One, 2020. PMID 32208444, Free PMC Article
    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. Proteomic analysis of anatoxin-a acute toxicity in zebrafish reveals gender specific responses and additional mechanisms of cell stress. Carneiro M, et al. Ecotoxicol Environ Saf, 2015 Oct. PMID 26046835

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    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

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    Preferred Names
    malate dehydrogenase 1Ab, NAD (soluble)
    Names
    MDH1a
    malate dehydrogenase 1, NAD (soluble)
    malate dehydrogenase 1b, NAD (soluble)
    NP_001342472.1
    NP_001342482.1
    NP_001342484.1
    NP_956263.1

    NCBI Reference Sequences (RefSeq)

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    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_001355543.1 → NP_001342472.1  malate dehydrogenase 1Ab, 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)
      CO957744, CR352220, CR925825, EH443654, EH458832, EH589033, EH612261
      Conserved Domains (1) summary
      cd01336
      Location:3 → 328
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases

    2. NM_001355553.1 → NP_001342482.1  malate dehydrogenase 1Ab, NAD (soluble) isoform mdh1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1. Variants 1 and 2 encode the same isoform (mdh1).
      Source sequence(s)
      CO957744, CR352220, CR925825, EH443654, EH458832, EH589033, EH612261
      UniProtKB/TrEMBL
      Q7ZSY2
      Related
      ENSDARP00000138273.1, ENSDART00000168926.2
      Conserved Domains (1) summary
      cd01336
      Location:3 → 328
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases

    3. NM_001355555.1 → NP_001342484.1  malate dehydrogenase 1Ab, NAD (soluble) isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an exon in the 5' region, which results in translation initiation at an in-frame downstream start codon compared to variant 1. The resulting isoform (3) has a shorter N-terminus compared to isoform mdh1.
      Source sequence(s)
      CO957744, CR352220, CR925825, EH443654, EH458832, EH589033, EH612261
      Conserved Domains (1) summary
      cd01336
      Location:1 → 283
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases

    4. NM_199969.4 → NP_956263.1  malate dehydrogenase 1Ab, NAD (soluble) isoform mdh1

      See identical proteins and their annotated locations for NP_956263.1

      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. Variants 1 and 2 encode the same isoform.
      Source sequence(s)
      CO957744, CR352220, CR925825, EH443654, EH458832, EH589033, EH612261
      UniProtKB/TrEMBL
      Q7ZSY2
      Conserved Domains (1) summary
      cd01336
      Location:3 → 328
      MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases

    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_007128.7 Reference GRCz11 Primary Assembly

      Range
      24439135..24444357
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394990.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      1..561
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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