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Ogdh oxoglutarate dehydrogenase [ Rattus norvegicus (Norway rat) ]

Gene ID: 360975, updated on 28-Oct-2024

Summary

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Symbol
Ogdhprovided by RGD
Full Name
oxoglutarate dehydrogenaseprovided by RGD
Primary source
RGD:1561359
See related
EnsemblRapid:ENSRNOG00000005130 AllianceGenome:RGD:1561359
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
E1o; OGDH-E1
Summary
Enables heat shock protein binding activity; oxoglutarate dehydrogenase (succinyl-transferring) activity; and protein-folding chaperone binding activity. Involved in 2-oxoglutarate metabolic process; nucleoside phosphate metabolic process; and tricarboxylic acid cycle. Part of oxoglutarate dehydrogenase complex. 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]
Expression
Biased expression in Heart (RPKM 1284.9), Muscle (RPKM 619.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ogdh in Genome Data Viewer
Location:
14q21
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (85363949..85431405)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (81150021..81217479)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (86414924..86481903)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene transfer RNA valine (anticodon AAC) 26 Neighboring gene U4 spliceosomal RNA Neighboring gene zinc finger, MIZ-type containing 2 Neighboring gene peptidylprolyl isomerase A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. The 2-oxoacid dehydrogenase complexes in mitochondria can produce superoxide/hydrogen peroxide at much higher rates than complex I. Quinlan CL, et al. J Biol Chem, 2014 Mar 21. PMID 24515115, Free PMC Article
  2. Phosphono analogues of 2-oxoglutarate protect cerebellar granule neurons upon glutamate excitotoxicity. Bunik VI, et al. Ann N Y Acad Sci, 2009 Aug. PMID 19723099
  3. Thiamine Induces Long-Term Changes in Amino Acid Profiles and Activities of 2-Oxoglutarate and 2-Oxoadipate Dehydrogenases in Rat Brain. Tsepkova PM, et al. Biochemistry (Mosc), 2017 Jun. PMID 28601082
  4. Calcium-insensitive splice variants of mammalian E1 subunit of 2-oxoglutarate dehydrogenase complex with tissue-specific patterns of expression. Denton RM, et al. Biochem J, 2016 May 1. PMID 26936970, Free PMC Article
  5. Studies on the regulation of the human E1 subunit of the 2-oxoglutarate dehydrogenase complex, including the identification of a novel calcium-binding site. Armstrong CT, et al. Biochem J, 2014 Apr 15. PMID 24495017

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Synthetic analogues of 2-oxo acids discriminate metabolic contribution of the 2-oxoglutarate and 2-oxoadipate dehydrogenases in mammalian cells and tissues.
    Title: Synthetic analogues of 2-oxo acids discriminate metabolic contribution of the 2-oxoglutarate and 2-oxoadipate dehydrogenases in mammalian cells and tissues.
  2. Thiamine Induces Long-Term Changes in Amino Acid Profiles and Activities of 2-Oxoglutarate and 2-Oxoadipate Dehydrogenases in Rat Brain
    Title: Thiamine Induces Long-Term Changes in Amino Acid Profiles and Activities of 2-Oxoglutarate and 2-Oxoadipate Dehydrogenases in Rat Brain.
  3. Tissue-specific expression of OGDH splice variants may thus provide a mechanism that tunes the control of the enzyme to the specialized metabolic and signalling needs of individual cell types
    Title: Calcium-insensitive splice variants of mammalian E1 subunit of 2-oxoglutarate dehydrogenase complex with tissue-specific patterns of expression.
  4. H2O2 production from Ogdh can be considerable but may previously have been misattributed to complex I.
    Title: The 2-oxoacid dehydrogenase complexes in mitochondria can produce superoxide/hydrogen peroxide at much higher rates than complex I.
  5. Data support the assumption that neuroprotection by phosphonates involves their interaction with cellular OGDH.
    Title: Phosphono analogues of 2-oxoglutarate protect cerebellar granule neurons upon glutamate excitotoxicity.
  6. In contrast to the heart complex, where only the known OGDH was determined, the band corresponding to the brain OGDH component was found to also include the novel 2-oxoglutarate dehydrogenase-like (OGDHL) protein.
    Title: Novel isoenzyme of 2-oxoglutarate dehydrogenase is identified in brain, but not in heart.
  7. Alpha-ketoglutarate dehydrogenase is a primary site of ROS production in normally functioning mitochondria.
    Title: Mitochondrial alpha-ketoglutarate dehydrogenase complex generates reactive oxygen species.
Submit: New GeneRIF Correction

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 RGD

Function Evidence Code Pubs
enables heat shock protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables metal ion binding 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 (NAD+) activity IEA
Inferred from Electronic Annotation
more info
  
enables oxoglutarate dehydrogenase (NAD+) activity ISO
Inferred from Sequence Orthology
more info
  
enables oxoglutarate dehydrogenase (succinyl-transferring) activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables oxoglutarate dehydrogenase (succinyl-transferring) activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables oxoglutarate dehydrogenase (succinyl-transferring) activity IEA
Inferred from Electronic Annotation
more info
  
enables oxoglutarate dehydrogenase (succinyl-transferring) activity ISO
Inferred from Sequence Orthology
more info
  
enables oxoglutarate dehydrogenase (succinyl-transferring) activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein-folding chaperone binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables thiamine pyrophosphate binding IEA
Inferred from Electronic Annotation
more info
  
enables thiamine pyrophosphate binding ISO
Inferred from Sequence Orthology
more info
  
enables thiamine pyrophosphate binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in 2-oxoglutarate metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in 2-oxoglutarate metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in 2-oxoglutarate metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in NADH metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cerebellar cortex development IEA
Inferred from Electronic Annotation
more info
  
involved_in cerebellar cortex development ISO
Inferred from Sequence Orthology
more info
  
involved_in generation of precursor metabolites and energy ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in glycolytic process IEA
Inferred from Electronic Annotation
more info
  
involved_in hippocampus development IEA
Inferred from Electronic Annotation
more info
  
involved_in hippocampus development ISO
Inferred from Sequence Orthology
more info
  
involved_in olfactory bulb mitral cell layer development IEA
Inferred from Electronic Annotation
more info
  
involved_in olfactory bulb mitral cell layer development ISO
Inferred from Sequence Orthology
more info
  
involved_in pyramidal neuron development IEA
Inferred from Electronic Annotation
more info
  
involved_in pyramidal neuron development ISO
Inferred from Sequence Orthology
more info
  
involved_in striatum development IEA
Inferred from Electronic Annotation
more info
  
involved_in striatum development ISO
Inferred from Sequence Orthology
more info
  
involved_in succinyl-CoA metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in succinyl-CoA metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in succinyl-CoA metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in tangential migration from the subventricular zone to the olfactory bulb IEA
Inferred from Electronic Annotation
more info
  
involved_in tangential migration from the subventricular zone to the olfactory bulb ISO
Inferred from Sequence Orthology
more info
  
involved_in thalamus development IEA
Inferred from Electronic Annotation
more info
  
involved_in thalamus development ISO
Inferred from Sequence Orthology
more info
  
involved_in tricarboxylic acid cycle IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in tricarboxylic acid cycle IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in mitochondrial membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrion IEA
Inferred from Electronic Annotation
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of oxoglutarate dehydrogenase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of oxoglutarate dehydrogenase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of oxoglutarate dehydrogenase complex IEA
Inferred from Electronic Annotation
more info
  
part_of oxoglutarate dehydrogenase complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
2-oxoglutarate dehydrogenase complex component E1
Names
2-oxoglutarate dehydrogenase E1 component, mitochondrial
2-oxoglutarate dehydrogenase, mitochondrial
2-oxoglutarate dehydrogenase, mitochondrial-like
OGDC-E1
alpha-KGDH-E1
alpha-ketoglutarate dehydrogenase
oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)
oxoglutarate dehydrogenase (lipoamide)
thiamine diphosphate (ThDP)-dependent 2-oxoglutarate dehydrogenase
NP_001017461.1
XP_006251508.1
XP_006251510.1
XP_038948146.1
XP_038948147.1
XP_038948148.1
XP_038948150.1
XP_063129462.1
XP_063129463.1
XP_063129464.1
XP_063129465.1
XP_063129466.1
XP_063129467.1
XP_063129468.1
XP_063129469.1

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_001017461.1 → NP_001017461.1  2-oxoglutarate dehydrogenase complex component E1 precursor

    See identical proteins and their annotated locations for NP_001017461.1

    Status: PROVISIONAL

    Source sequence(s)
    BC083811
    UniProtKB/Swiss-Prot
    Q5XI78
    UniProtKB/TrEMBL
    A6IKS7
    Related
    ENSRNOP00000107727.1, ENSRNOT00000141941.1
    Conserved Domains (5) summary
    PRK09404
    Location:49 → 1015
    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 → 864
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:47 → 82
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:871 → 1014
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086032.1 Reference GRCr8

    Range
    85363949..85431405
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039092222.2 → XP_038948150.1  2-oxoglutarate dehydrogenase complex component E1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A1Y1, A6IKS6
    Related
    ENSRNOP00000086308.1, ENSRNOT00000095078.2
    Conserved Domains (1) summary
    PRK09404
    Location:49 → 1026
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed

  2. XM_006251448.5 → XP_006251510.1  2-oxoglutarate dehydrogenase complex component E1 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AF05
    Conserved Domains (5) summary
    PRK09404
    Location:49 → 1011
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
    cd02016
    Location:260 → 523
    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:645 → 860
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:47 → 82
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:867 → 1010
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

  3. XM_039092218.2 → XP_038948146.1  2-oxoglutarate dehydrogenase complex component E1 isoform X1

    UniProtKB/TrEMBL
    A0A8L2R156
    Related
    ENSRNOP00000068674.2, ENSRNOT00000083394.3
    Conserved Domains (1) summary
    PRK09404
    Location:49 → 1030
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed

  4. XM_063273396.1 → XP_063129466.1  2-oxoglutarate dehydrogenase complex component E1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A1Y1, A6IKS6

  5. XM_063273394.1 → XP_063129464.1  2-oxoglutarate dehydrogenase complex component E1 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AF05
    Related
    ENSRNOP00000091120.1, ENSRNOT00000101150.2

  6. XM_063273392.1 → XP_063129462.1  2-oxoglutarate dehydrogenase complex component E1 isoform X1

    UniProtKB/TrEMBL
    A0A8L2R156

  7. XM_063273399.1 → XP_063129469.1  2-oxoglutarate dehydrogenase complex component E1 isoform X3

    UniProtKB/Swiss-Prot
    Q5XI78
    UniProtKB/TrEMBL
    A6IKS7

  8. XM_063273393.1 → XP_063129463.1  2-oxoglutarate dehydrogenase complex component E1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A1Y1, A6IKS6

  9. XM_063273395.1 → XP_063129465.1  2-oxoglutarate dehydrogenase complex component E1 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AF05

  10. XM_039092219.2 → XP_038948147.1  2-oxoglutarate dehydrogenase complex component E1 isoform X1

    UniProtKB/TrEMBL
    A0A8L2R156
    Conserved Domains (1) summary
    PRK09404
    Location:49 → 1030
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed

  11. XM_063273398.1 → XP_063129468.1  2-oxoglutarate dehydrogenase complex component E1 isoform X3

    UniProtKB/Swiss-Prot
    Q5XI78
    UniProtKB/TrEMBL
    A6IKS7

  12. XM_006251446.5 → XP_006251508.1  2-oxoglutarate dehydrogenase complex component E1 isoform X3

    See identical proteins and their annotated locations for XP_006251508.1

    UniProtKB/Swiss-Prot
    Q5XI78
    UniProtKB/TrEMBL
    A6IKS7
    Related
    ENSRNOP00000054026.3, ENSRNOT00000057199.6
    Conserved Domains (5) summary
    PRK09404
    Location:49 → 1015
    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 → 864
    Transket_pyr; Transketolase, pyrimidine binding domain
    pfam16078
    Location:47 → 82
    2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
    pfam16870
    Location:871 → 1014
    OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

  13. XM_039092220.2 → XP_038948148.1  2-oxoglutarate dehydrogenase complex component E1 isoform X1

    UniProtKB/TrEMBL
    A0A8L2R156
    Conserved Domains (1) summary
    PRK09404
    Location:49 → 1030
    sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed

  14. XM_063273397.1 → XP_063129467.1  2-oxoglutarate dehydrogenase complex component E1 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A1Y1, A6IKS6
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5XI78.1 GenPept UniProtKB/Swiss-Prot:Q5XI78

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