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ogdha oxoglutarate dehydrogenase a [ Danio rerio (zebrafish) ]

Gene ID: 564552, updated on 28-Oct-2024

Summary

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Official Symbol
ogdhaprovided by ZNC
Official Full Name
oxoglutarate dehydrogenase aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-2143
See related
Ensembl:ENSDARG00000034270 AllianceGenome:ZFIN:ZDB-GENE-030131-2143
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
ogdh; zgc:73296; im:7045267; wu:fa06d01; wu:fb98a04
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. Is expressed in several structures, including immature eye; lens; mesoderm; musculature system; and pronephric duct. Human ortholog(s) of this gene implicated in oxoglutarate dehydrogenase deficiency. Orthologous to human OGDH (oxoglutarate dehydrogenase). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
all
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Genomic context

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See ogdha in Genome Data Viewer
Location:
chromosome: 8
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (45763454..45838481, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (45755575..45830602, complement)

Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene dickkopf-related protein 4-like Neighboring gene peptidylprolyl isomerase Aa (cyclophilin A) Neighboring gene ADAM metallopeptidase domain 9a Neighboring gene nudix (nucleoside diphosphate linked moiety X)-type motif 18 Neighboring gene FHF complex subunit HOOK interacting protein 2B

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 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. Targeted toxicometabolomics of endosulfan sulfate in adult zebrafish (Danio rerio) using GC-MS/MS in multiple reaction monitoring mode. Lee HK, et al. J Hazard Mater, 2020 May 5. PMID 32000124
  3. 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
  4. A comparative map of the zebrafish genome. Woods IG, et al. Genome Res, 2000 Dec. PMID 11116086, Free PMC Article
  5. Temporal pattern of loss/persistence of duplicate genes involved in signal transduction and metabolic pathways after teleost-specific genome duplication. Sato Y, et al. BMC Evol Biol, 2009 Jun 5. PMID 19500364, Free PMC Article

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

Clone Names

  • MGC73296

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
oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide)
Names
oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)
NP_957073.2
XP_005172525.1
XP_005172526.1
XP_005172527.1
XP_009302519.1

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_200779.3 → NP_957073.2  oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide)

    Status: VALIDATED

    Source sequence(s)
    CU137648
    UniProtKB/TrEMBL
    A0A0R4IP01, A0A8M1PDE6
    Related
    ENSDARP00000138115.1, ENSDART00000170485.2
    Conserved Domains (5) summary
    PRK09404
    Location:50 → 1014
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:264 → 527
    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:649 → 863
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:48 → 83
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:870 → 1013
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

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_007119.7 Reference GRCz11 Primary Assembly

    Range
    45763454..45838481 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005172469.5 → XP_005172526.1  oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide) isoform X3

    UniProtKB/TrEMBL
    A0A8M2BJN5, B8JI08
    Related
    ENSDARP00000121989.1, ENSDART00000148206.3
    Conserved Domains (5) summary
    PRK09404
    Location:50 → 1014
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:264 → 527
    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:649 → 863
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:48 → 83
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:870 → 1013
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

  2. XM_009304244.4 → XP_009302519.1  oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide) isoform X2

    UniProtKB/TrEMBL
    A0A8M3AVG6
    Conserved Domains (5) summary
    PRK09404
    Location:50 → 1029
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:279 → 542
    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:664 → 878
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:48 → 83
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:885 → 1028
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

  3. XM_005172468.5 → XP_005172525.1  oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide) isoform X1

    UniProtKB/TrEMBL
    A0A8M2BJT5
    Conserved Domains (5) summary
    PRK09404
    Location:50 → 1046
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:296 → 559
    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:681 → 895
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:48 → 83
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:902 → 1045
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

  4. XM_005172470.5 → XP_005172527.1  oxoglutarate (alpha-ketoglutarate) dehydrogenase a (lipoamide) isoform X4

    UniProtKB/TrEMBL
    A0A8M2BKA2, F1Q5B8
    Related
    ENSDARP00000009474.10, ENSDART00000022242.10
    Conserved Domains (5) summary
    PRK09404
    Location:50 → 1011
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:261 → 524
    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:646 → 860
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:48 → 83
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:867 → 1010
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal
Nucleotide Protein Strain
Heading Accession and Version

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