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    Nudt3 nudix hydrolase 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294292, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Nudt3provided by RGD
    Official Full Name
    nudix hydrolase 3provided by RGD
    Primary source
    RGD:1310183
    See related
    Ensembl:ENSRNOG00000061176 AllianceGenome:RGD:1310183
    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
    Summary
    Predicted to enable magnesium ion binding activity and pyrophosphatase activity. Predicted to be involved in RNA decapping and organophosphate catabolic process. Predicted to be located in cytosol. Predicted to be active in cytoplasm and nucleus. Orthologous to human NUDT3 (nudix hydrolase 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 389.1), Heart (RPKM 347.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nudt3 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (5636184..5688770, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (5634345..5686950, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (7155744..7208292, complement)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene high mobility group AT-hook 1 Neighboring gene small integral membrane protein 29 Neighboring gene ribosomal protein S10 Neighboring gene protein kinase C and casein kinase substrate in neurons 1

    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. Crystal structure of human diphosphoinositol phosphatase 1. Thorsell AG, et al. Proteins, 2009 Oct. PMID 19585659
    2. A novel context for the 'MutT' module, a guardian of cell integrity, in a diphosphoinositol polyphosphate phosphohydrolase. Safrany ST, et al. EMBO J, 1998 Nov 16. PMID 9822604, Free PMC Article
    3. Site-directed mutagenesis of diphosphoinositol polyphosphate phosphohydrolase, a dual specificity NUDT enzyme that attacks diadenosine polyphosphates and diphosphoinositol polyphosphates. Yang X, et al. J Biol Chem, 1999 Dec 10. PMID 10585413
    4. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC105578

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA] diphosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA] diphosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables bis(5'-adenosyl)-hexaphosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables bis(5'-adenosyl)-pentaphosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables diphosphoinositol-polyphosphate diphosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables diphosphoinositol-polyphosphate diphosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables diphosphoinositol-polyphosphate diphosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables endopolyphosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables endopolyphosphatase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables endopolyphosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables inositol diphosphate pentakisphosphate diphosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables inositol diphosphate pentakisphosphate diphosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables inositol diphosphate tetrakisphosphate diphosphatase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables inositol diphosphate tetrakisphosphate diphosphatase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables inositol-3,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables inositol-5-diphosphate-1,2,3,4,6-pentakisphosphate diphosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables magnesium ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables magnesium ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables manganese ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables manganese ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA decapping ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA decapping ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in adenosine 5'-(hexahydrogen pentaphosphate) catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in diadenosine hexaphosphate catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in diadenosine hexaphosphate catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in diadenosine pentaphosphate catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in diphosphoinositol polyphosphate catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in diphosphoinositol polyphosphate catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in diphosphoinositol polyphosphate metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    diphosphoinositol polyphosphate phosphohydrolase 1
    Names
    DIPP-1
    ap6A hydrolase
    diadenosine 5',5'''-P1,P6-hexaphosphate hydrolase 1
    diadenosine hexaphosphate hydrolase
    endopolyphosphatase
    m7GpppN-mRNA hydrolase
    m7GpppX diphosphatase
    nucleoside diphosphate-linked moiety X motif 3
    nudix (nucleoside diphosphate linked moiety X)-type motif 3
    nudix (nucleotide diphosphate linked moiety X)-type motif 3
    nudix motif 3
    nudix-type motif 3
    NP_001019414.1
    XP_038954444.2
    XP_038954445.1

    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_001024243.2 → NP_001019414.1  diphosphoinositol polyphosphate phosphohydrolase 1

      See identical proteins and their annotated locations for NP_001019414.1

      Status: VALIDATED

      Source sequence(s)
      BC093618, JAXUCZ010000020
      UniProtKB/Swiss-Prot
      Q566C7
      UniProtKB/TrEMBL
      A0A8I5YBL9, A6JJM7
      Related
      ENSRNOP00000074608.1, ENSRNOT00000083169.2
      Conserved Domains (1) summary
      cd04666
      Location:19 → 131
      Nudix_Hydrolase_9; Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly ...

    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_086038.1 Reference GRCr8

      Range
      5636184..5688770 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098517.2 → XP_038954445.1  diphosphoinositol polyphosphate phosphohydrolase 1 isoform X2

      Conserved Domains (1) summary
      cl00447
      Location:29 → 94
      Nudix_Hydrolase; Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ ...

    2. XM_039098516.2 → XP_038954444.2  diphosphoinositol polyphosphate phosphohydrolase 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6ALX3
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q566C7.1 GenPept UniProtKB/Swiss-Prot:Q566C7

    Gene LinkOut

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