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Dmgdh dimethylglycine dehydrogenase [ Rattus norvegicus (Norway rat) ]

Gene ID: 245961, updated on 2-Nov-2024

Summary

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Official Symbol
Dmgdhprovided by RGD
Official Full Name
dimethylglycine dehydrogenaseprovided by RGD
Primary source
RGD:620453
See related
EnsemblRapid:ENSRNOG00000023588 AllianceGenome:RGD:620453
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Me2GlyDH
Summary
Enables dimethylglycine dehydrogenase activity; flavin adenine dinucleotide binding activity; and folic acid binding activity. Involved in tetrahydrofolate interconversion. Predicted to be active in mitochondrial matrix. Human ortholog(s) of this gene implicated in dimethylglycine dehydrogenase deficiency. Orthologous to human DMGDH (dimethylglycine dehydrogenase). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Liver (RPKM 416.1) and Kidney (RPKM 254.1) See more
Orthologs
human mouse all
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Genomic context

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See Dmgdh in Genome Data Viewer
Location:
2q12
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (26647540..26722496)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (24912600..24987533)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (23289376..23370360)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L36 like 7 Neighboring gene betaine-homocysteine S-methyltransferase 2 Neighboring gene arylsulfatase B Neighboring gene small nucleolar RNA SNORA48 Neighboring gene small nucleolar RNA SNORA24

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. Folate in demethylation: the crystal structure of the rat dimethylglycine dehydrogenase complexed with tetrahydrofolate. Luka Z, et al. Biochem Biophys Res Commun, 2014 Jul 11. PMID 24858690, Free PMC Article
  2. Rat liver dimethylglycine dehydrogenase. Flavinylation of the enzyme in hepatocytes in primary culture and characterization of a cDNA clone. Lang H, et al. Eur J Biochem, 1991 Jun 15. PMID 1710985
  3. Identification of folate binding protein of mitochondria as dimethylglycine dehydrogenase. Wittwer AJ, et al. Proc Natl Acad Sci U S A, 1980 Aug. PMID 6159630, Free PMC Article
  4. The purified recombinant precursor of rat mitochondrial dimethylglycine dehydrogenase binds FAD via an autocatalytic reaction. Brizio C, et al. Int J Biol Macromol, 2008 Jun 1. PMID 18423846
  5. Over-expression in Escherichia coli, functional characterization and refolding of rat dimethylglycine dehydrogenase. Brizio C, et al. Protein Expr Purif, 2004 Oct. PMID 15358367

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. crystal structures of mature and precursor forms of DMGDH in presence of tetrahydrofolate; folate binding site is connected with enzyme active center via an intramolecular channel suggesting possible transfer of the intermediate imine of dimethylglycine from the active center to the bound THF where they could react producing a 5,10-methylenetetrahydrofolate
    Title: Folate in demethylation: the crystal structure of the rat dimethylglycine dehydrogenase complexed with tetrahydrofolate.
  2. covalent attachment of FAD to dimethylglycine dehydrogenase apoenzyme can proceed in vitro autocatalytically
    Title: The purified recombinant precursor of rat mitochondrial dimethylglycine dehydrogenase binds FAD via an autocatalytic reaction.
  3. characterization and folding of rat dimethylglycine dehydrogenase
    Title: Over-expression in Escherichia coli, functional characterization and refolding of rat dimethylglycine dehydrogenase.
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

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables dimethylglycine dehydrogenase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables dimethylglycine dehydrogenase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables dimethylglycine dehydrogenase activity IEA
Inferred from Electronic Annotation
more info
  
enables dimethylglycine dehydrogenase activity ISO
Inferred from Sequence Orthology
more info
  
enables dimethylglycine dehydrogenase activity TAS
Traceable Author Statement
more info
 PubMed 
enables flavin adenine dinucleotide binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables flavin adenine dinucleotide binding TAS
Traceable Author Statement
more info
 PubMed 
enables folic acid binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in amino-acid betaine catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in choline catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in choline catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in choline catabolic process TAS
Traceable Author Statement
more info
 PubMed 
involved_in choline metabolic process TAS
Traceable Author Statement
more info
 PubMed 
involved_in tetrahydrofolate interconversion IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in mitochondrial matrix IBA
Inferred from Biological aspect of Ancestor
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
  

General protein information

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Preferred Names
dimethylglycine dehydrogenase, mitochondrial
NP_620802.2
XP_038957650.1
XP_038957651.1
XP_063137364.1

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_139102.2 → NP_620802.2  dimethylglycine dehydrogenase, mitochondrial precursor

    See identical proteins and their annotated locations for NP_620802.2

    Status: VALIDATED

    Source sequence(s)
    BC085697
    UniProtKB/Swiss-Prot
    Q63342
    UniProtKB/TrEMBL
    Q5RKL4
    Related
    ENSRNOP00000030481.3, ENSRNOT00000032783.6
    Conserved Domains (6) summary
    COG0404
    Location:481 → 850
    GcvT; Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]
    COG0665
    Location:40 → 428
    DadA; Glycine/D-amino acid oxidase (deaminating) [Amino acid transport and metabolism]
    pfam01571
    Location:475 → 738
    GCV_T; Aminomethyltransferase folate-binding domain
    pfam08669
    Location:746 → 838
    GCV_T_C; Glycine cleavage T-protein C-terminal barrel domain
    pfam16350
    Location:410 → 465
    FAO_M; FAD dependent oxidoreductase central domain
    cl21454
    Location:38 → 83
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

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_086020.1 Reference GRCr8

    Range
    26647540..26722496
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063281294.1 → XP_063137364.1  dimethylglycine dehydrogenase, mitochondrial isoform X3

    Related
    ENSRNOP00000108170.1, ENSRNOT00000132864.1

  2. XM_039101723.2 → XP_038957651.1  dimethylglycine dehydrogenase, mitochondrial isoform X2

    UniProtKB/TrEMBL
    A6I4V9
    Conserved Domains (3) summary
    COG0665
    Location:67 → 455
    DadA; Glycine/D-amino acid oxidase (deaminating) [Amino acid transport and metabolism]
    pfam01571
    Location:502 → 765
    GCV_T; Aminomethyltransferase folate-binding domain
    pfam16350
    Location:437 → 492
    FAO_M; FAD dependent oxidoreductase central domain

  3. XM_039101722.2 → XP_038957650.1  dimethylglycine dehydrogenase, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    Q63342
    UniProtKB/TrEMBL
    A0A0G2K9Y2
    Related
    ENSRNOP00000075177.1, ENSRNOT00000090666.3
    Conserved Domains (3) summary
    COG0404
    Location:508 → 877
    GcvT; Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]
    COG0665
    Location:67 → 455
    DadA; Glycine/D-amino acid oxidase (deaminating) [Amino acid transport and metabolism]
    pfam16350
    Location:437 → 492
    FAO_M; FAD dependent oxidoreductase central domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q63342.1 GenPept UniProtKB/Swiss-Prot:Q63342

Gene LinkOut

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