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

Gene ID: 335715, updated on 27-Mar-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:
9
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (24439554..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 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

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 (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables L-malate dehydrogenase activity IEA
Inferred from Electronic Annotation
more info
  
enables L-malate dehydrogenase 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
acts_upstream_of_or_within carboxylic acid metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within malate metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tricarboxylic acid cycle IEA
Inferred from Electronic Annotation
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_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
    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
    Related
    ENSDARP00000138273.1, ENSDART00000168926.2
    Conserved Domains (1) summary
    cd01336
    Location:3 → 328
    MDH_cytoplasmic_cytosolic; Cytoplasmic and cytosolic Malate dehydrogenases

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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
    24439554..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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