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    Ogdh oxoglutarate dehydrogenase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360975, updated on 12-Aug-2018

    Summary

    Official Symbol
    Ogdhprovided by RGD
    Official Full Name
    oxoglutarate dehydrogenaseprovided by RGD
    Primary source
    RGD:1561359
    See related
    Ensembl:ENSRNOG00000005130
    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
    Expression
    Biased expression in Heart (RPKM 1284.9), Muscle (RPKM 619.9) and 9 other tissues See more

    Genomic context

    See Ogdh in Genome Data Viewer
    Location:
    14q21
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (86414924..86481903)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 14 NC_005113.3 (87376110..87442862)

    Chromosome 14 - NC_005113.4Genomic Context describing neighboring genes Neighboring gene NPC1 like intracellular cholesterol transporter 1 Neighboring gene ribosome biogenesis protein NSA2 homolog pseudogene Neighboring gene transmembrane p24 trafficking protein 4 Neighboring gene zinc finger MIZ domain-containing protein 2 Neighboring gene 2-oxoglutarate dehydrogenase, mitochondrial-like

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

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

    General protein information

    Preferred Names
    2-oxoglutarate dehydrogenase, mitochondrial
    Names
    2-oxoglutarate dehydrogenase E1 component, mitochondrial
    2-oxoglutarate dehydrogenase complex component E1
    OGDC-E1
    alpha-ketoglutarate dehydrogenase
    oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)
    oxoglutarate dehydrogenase (lipoamide)
    NP_001017461.1
    XP_006251508.1
    XP_006251509.1
    XP_006251510.1

    NCBI Reference Sequences (RefSeq)

    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_001017461.1NP_001017461.1  2-oxoglutarate dehydrogenase, mitochondrial precursor

      See identical proteins and their annotated locations for NP_001017461.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083811
      UniProtKB/Swiss-Prot
      Q5XI78
      Related
      ENSRNOP00000054026.2, ENSRNOT00000057199.4
      Conserved Domains (5) summary
      PRK09404
      Location:491015
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
      cd02016
      Location:264527
      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:649864
      Transket_pyr; Transketolase, pyrimidine binding domain
      pfam16078
      Location:4782
      2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
      pfam16870
      Location:8711014
      OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal

    RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005113.4 Reference Rnor_6.0 Primary Assembly

      Range
      86414924..86481903
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006251448.3XP_006251510.1  2-oxoglutarate dehydrogenase, mitochondrial isoform X2

      Conserved Domains (5) summary
      PRK09404
      Location:491011
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
      cd02016
      Location:260523
      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:645860
      Transket_pyr; Transketolase, pyrimidine binding domain
      pfam16078
      Location:4782
      2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
      pfam16870
      Location:8671010
      OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal
    2. XM_006251446.3XP_006251508.1  2-oxoglutarate dehydrogenase, mitochondrial isoform X1

      See identical proteins and their annotated locations for XP_006251508.1

      UniProtKB/Swiss-Prot
      Q5XI78
      Conserved Domains (5) summary
      PRK09404
      Location:491015
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
      cd02016
      Location:264527
      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:649864
      Transket_pyr; Transketolase, pyrimidine binding domain
      pfam16078
      Location:4782
      2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
      pfam16870
      Location:8711014
      OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal
    3. XM_006251447.2XP_006251509.1  2-oxoglutarate dehydrogenase, mitochondrial isoform X1

      See identical proteins and their annotated locations for XP_006251509.1

      UniProtKB/Swiss-Prot
      Q5XI78
      Conserved Domains (5) summary
      PRK09404
      Location:491015
      sucA; 2-oxoglutarate dehydrogenase E1 component; Reviewed
      cd02016
      Location:264527
      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:649864
      Transket_pyr; Transketolase, pyrimidine binding domain
      pfam16078
      Location:4782
      2-oxogl_dehyd_N; 2-oxoglutarate dehydrogenase N-terminus
      pfam16870
      Location:8711014
      OxoGdeHyase_C; 2-oxoglutarate dehydrogenase C-terminal
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