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

Summary

Official Symbol: Nudt3provided by RGD
Official Full Name: nudix hydrolase 3provided by RGD
Primary source: RGD:1310183
See related: EnsemblRapid: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: Enables endopolyphosphatase activity. Predicted to be involved in RNA decapping and organophosphate catabolic process. Predicted to be located in cytosol. Predicted to be active in cytoplasm; glutamatergic synapse; and nucleus. Orthologous to human NUDT3 (nudix hydrolase 3). [provided by Alliance of Genome Resources, Dec 2024]
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

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_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

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General gene information

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Markers

RH142963 (e-PCR)
- UniSTS:232210

RH140212 (e-PCR)
- UniSTS:222291

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 hydrolase activity	IEA Inferred from Electronic Annotation 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 metal ion binding	IEA Inferred from Electronic Annotation more info
enables pyrophosphatase activity	IEA Inferred from Electronic Annotation 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 glutamatergic synapse	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
is_active_in synapse	ISO Inferred from Sequence Orthology 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

EC 3.6.1.10

EC 3.6.1.52

EC 3.6.1.59

EC 3.6.1.61

EC 3.6.1.62

XP_038954444.2

EC 3.6.1.10

EC 3.6.1.52

EC 3.6.1.59

EC 3.6.1.61

EC 3.6.1.62

XP_038954445.1

EC 3.6.1.10

EC 3.6.1.52

EC 3.6.1.59

EC 3.6.1.61

EC 3.6.1.62

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_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, ENSRNOT00000083169.3

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

NC_086038.1 Reference GRCr8

Range

5636184..5688770 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A8I5YBL9, A0A8I6ALX3

Related

ENSRNOP00000094072.1, ENSRNOT00000115403.2