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Gmds GDP-mannose 4, 6-dehydratase [ Rattus norvegicus (Norway rat) ]

Gene ID: 291095, updated on 4-Jan-2025

Summary

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Official Symbol
Gmdsprovided by RGD
Official Full Name
GDP-mannose 4, 6-dehydrataseprovided by RGD
Primary source
RGD:1311008
See related
EnsemblRapid:ENSRNOG00000017605 AllianceGenome:RGD:1311008
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
Summary
Predicted to enable GDP-mannose 4,6-dehydratase activity; NADP+ binding activity; and identical protein binding activity. Predicted to be involved in 'de novo' GDP-L-fucose biosynthetic process and Notch signaling pathway. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in open-angle glaucoma. Orthologous to human GMDS (GDP-mannose 4,6-dehydratase). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Spleen (RPKM 45.3), Brain (RPKM 43.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gmds in Genome Data Viewer
Location:
17p12
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (32304029..32830708)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (32095315..32621975)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (33408722..33938086)

Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S27a, pseudogene 20 Neighboring gene myosin light chain kinase family, member 4 Neighboring gene uncharacterized LOC108348555 Neighboring gene uncharacterized LOC134482705 Neighboring gene forkhead box C1

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
  • 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. Molecular cloning and expression of GDP-D-mannose-4,6-dehydratase, a key enzyme for fucose metabolism defective in Lec13 cells. Ohyama C, et al. J Biol Chem, 1998 Jun 5. PMID 9603974
  2. Common variants near ABCA1, AFAP1 and GMDS confer risk of primary open-angle glaucoma. Gharahkhani P, et al. Nat Genet, 2014 Oct. PMID 25173105, Free PMC Article
  3. Molecular cloning of human GDP-mannose 4,6-dehydratase and reconstitution of GDP-fucose biosynthesis in vitro. Sullivan FX, et al. J Biol Chem, 1998 Apr 3. PMID 9525924
  4. Proteomic analysis of human parotid gland exosomes by multidimensional protein identification technology (MudPIT). Gonzalez-Begne M, et al. J Proteome Res, 2009 Mar. PMID 19199708, Free PMC Article
  5. Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations. Fragoza R, et al. Nat Commun, 2019 Sep 12. PMID 31515488, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC125154

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables GDP-mannose 4,6-dehydratase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables GDP-mannose 4,6-dehydratase activity ISO
Inferred from Sequence Orthology
more info
  
enables GDP-mannose 4,6-dehydratase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables NADP+ binding ISO
Inferred from Sequence Orthology
more info
  
enables NADP+ binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in 'de novo' GDP-L-fucose biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in 'de novo' GDP-L-fucose biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
involved_in 'de novo' GDP-L-fucose biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in 'de novo' GDP-L-fucose biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in GDP-mannose metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in GDP-mannose metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in Notch signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
GDP-mannose 4,6 dehydratase
NP_001034695.1
XP_038951422.1
XP_038951423.1
XP_038951424.1
XP_063132253.1

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_001039606.1 → NP_001034695.1  GDP-mannose 4,6 dehydratase

    See identical proteins and their annotated locations for NP_001034695.1

    Status: PROVISIONAL

    Source sequence(s)
    BC104708
    UniProtKB/TrEMBL
    F7FFK9, Q3MHS7
    Related
    ENSRNOP00000023691.4, ENSRNOT00000023691.7
    Conserved Domains (2) summary
    TIGR01472
    Location:24 → 366
    gmd; GDP-mannose 4,6-dehydratase
    pfam16363
    Location:27 → 358
    GDP_Man_Dehyd; GDP-mannose 4,6 dehydratase

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_086035.1 Reference GRCr8

    Range
    32304029..32830708
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063276183.1 → XP_063132253.1  GDP-mannose 4,6 dehydratase isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZPV8

  2. XM_039095494.2 → XP_038951422.1  GDP-mannose 4,6 dehydratase isoform X2

    Conserved Domains (1) summary
    cl21454
    Location:24 → 300
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

  3. XM_039095495.2 → XP_038951423.1  GDP-mannose 4,6 dehydratase isoform X3

    Conserved Domains (1) summary
    cl21454
    Location:1 → 287
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

  4. XM_039095496.2 → XP_038951424.1  GDP-mannose 4,6 dehydratase isoform X4

    Conserved Domains (1) summary
    cl21454
    Location:1 → 259
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins
Nucleotide Protein Strain
Heading Accession and Version

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