Ogdh oxoglutarate dehydrogenase [Rattus norvegicus (Norway rat)] - Gene

Summary

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, Nov 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

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_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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.
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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BF387217 (e-PCR)
- UniSTS:244258

RH133330 (e-PCR)
- UniSTS:216613

MARC_4335-4336:996679558:1 (e-PCR)
- UniSTS:269358

D14Rat20 (e-PCR)
- UniSTS:118361

RH135290 (e-PCR)
- UniSTS:218567

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

EC 1.2.4.2

XP_006251508.1

EC 1.2.4.2

XP_006251510.1

EC 1.2.4.2

XP_038948146.1

EC 1.2.4.2

XP_038948147.1

EC 1.2.4.2

XP_038948148.1

EC 1.2.4.2

XP_038948150.1

EC 1.2.4.2

XP_063129462.1

EC 1.2.4.2

XP_063129463.1

EC 1.2.4.2

XP_063129464.1

EC 1.2.4.2

XP_063129465.1

EC 1.2.4.2

XP_063129466.1

EC 1.2.4.2

XP_063129467.1

EC 1.2.4.2

XP_063129468.1

EC 1.2.4.2

XP_063129469.1

EC 1.2.4.2

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)

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

NC_086032.1 Reference GRCr8

Range

85363949..85431405

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A8I6A1Y1, A6IKS6
XM_063273394.1 → XP_063129464.1 2-oxoglutarate dehydrogenase complex component E1 isoform X4

UniProtKB/TrEMBL

A0A8I6AF05

Related

ENSRNOP00000091120.1, ENSRNOT00000101150.2
XM_063273392.1 → XP_063129462.1 2-oxoglutarate dehydrogenase complex component E1 isoform X1

UniProtKB/TrEMBL

A0A8L2R156
XM_063273399.1 → XP_063129469.1 2-oxoglutarate dehydrogenase complex component E1 isoform X3

UniProtKB/Swiss-Prot

Q5XI78

UniProtKB/TrEMBL

A6IKS7
XM_063273393.1 → XP_063129463.1 2-oxoglutarate dehydrogenase complex component E1 isoform X2

UniProtKB/TrEMBL

A0A8I6A1Y1, A6IKS6
XM_063273395.1 → XP_063129465.1 2-oxoglutarate dehydrogenase complex component E1 isoform X4

UniProtKB/TrEMBL

A0A8I6AF05
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
XM_063273398.1 → XP_063129468.1 2-oxoglutarate dehydrogenase complex component E1 isoform X3

UniProtKB/Swiss-Prot

Q5XI78

UniProtKB/TrEMBL

A6IKS7
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
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
XM_063273397.1 → XP_063129467.1 2-oxoglutarate dehydrogenase complex component E1 isoform X2

UniProtKB/TrEMBL

A0A8I6A1Y1, A6IKS6