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    ogdhb oxoglutarate dehydrogenase b [ Danio rerio (zebrafish) ]

    Gene ID: 797715, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ogdhbprovided by ZNC
    Official Full Name
    oxoglutarate dehydrogenase bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-090311-8
    See related
    Ensembl:ENSDARG00000103428 AllianceGenome:ZFIN:ZDB-GENE-090311-8
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:ch211-229p19.3
    Summary
    Predicted to enable oxoglutarate dehydrogenase (succinyl-transferring) activity. Acts upstream of or within heart contraction. Predicted to be located in nucleus. Predicted to be part of oxoglutarate dehydrogenase complex. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in oxoglutarate dehydrogenase deficiency. Orthologous to human OGDH (oxoglutarate dehydrogenase). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See ogdhb in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (45148170..45203697)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (45301555..45357484)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene NudC domain containing 3 Neighboring gene calcium/calmodulin-dependent protein kinase type II subunit beta Neighboring gene poly (ADP-ribose) glycohydrolase, like Neighboring gene zinc finger, MIZ-type containing 2

    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. Loss of dihydrolipoyl succinyltransferase (DLST) leads to reduced resting heart rate in the zebrafish. Keßler M, et al. Basic Res Cardiol, 2015 Mar. PMID 25697682, Free PMC Article
    2. Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity. Lin SJ, et al. Genome Med, 2023 Nov 29. PMID 38031187, Free PMC Article
    3. A Primer Genetic Toolkit for Exploring Mitochondrial Biology and Disease Using Zebrafish. Sabharwal A, et al. Genes (Basel), 2022 Jul 23. PMID 35893052, Free PMC Article
    4. Thifluzamide induces the toxic effects on zebrafish (Danio rerio) via inhibition of succinate dehydrogenase (SDH). Yang Y, et al. Environ Pollut, 2020 Oct. PMID 32806454
    5. A novel inducible mutagenesis screen enables to isolate and clone both embryonic and adult zebrafish mutants. Ma Z, et al. Sci Rep, 2017 Sep 4. PMID 28871129, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxoglutarate dehydrogenase (succinyl-transferring) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables oxoglutarate dehydrogenase (succinyl-transferring) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables thiamine pyrophosphate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within heart contraction IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in tricarboxylic acid cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of oxoglutarate dehydrogenase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    2-oxoglutarate dehydrogenase, mitochondrial; 2-oxoglutarate dehydrogenase complex component E1
    Names
    oxoglutarate (alpha-ketoglutarate) dehydrogenase b (lipoamide)
    XP_001338181.2
    XP_021335152.1

    NCBI Reference Sequences (RefSeq)

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    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_007121.7 Reference GRCz11 Primary Assembly

      Range
      45148170..45203697
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021479477.2 → XP_021335152.1  2-oxoglutarate dehydrogenase complex component E1 isoform X2

      UniProtKB/TrEMBL
      A0A8M9PUH2
      Conserved Domains (1) summary
      PRK09404
      Location:53 → 1012
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed

    2. XM_001338145.8 → XP_001338181.2  2-oxoglutarate dehydrogenase complex component E1 isoform X1

      UniProtKB/TrEMBL
      A0A8M1PZ74, E7EZ05
      Related
      ENSDARP00000135618.1, ENSDART00000172621.2
      Conserved Domains (5) summary
      PRK09404
      Location:53 → 1015
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
      cd02016
      Location:265 → 528
      TPP_E1_OGDC_like; Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of ...
      pfam02779
      Location:650 → 864
      Transket_pyr; Transketolase, pyrimidine binding domain
      pfam16078
      Location:51 → 86
      2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
      pfam16870
      Location:871 → 1014
      OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal
    Nucleotide Protein Strain
    Heading Accession and Version

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