U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

NUDT3 nudix hydrolase 3 [ Homo sapiens (human) ]

Gene ID: 11165, updated on 15-Jul-2024

Summary

Official Symbol
NUDT3provided by HGNC
Official Full Name
nudix hydrolase 3provided by HGNC
Primary source
HGNC:HGNC:8050
See related
Ensembl:ENSG00000272325 MIM:609228; AllianceGenome:HGNC:8050
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
DIPP; DIPP1; DIPP-1
Summary
NUDT3 belongs to the MutT, or Nudix, protein family. Nudix proteins act as homeostatic checkpoints at important stages in nucleoside phosphate metabolic pathways, guarding against elevated levels of potentially dangerous intermediates, like 8-oxo-dGTP, which promotes AT-to-CG transversions (Safrany et al., 1998 [PubMed 9822604]).[supplied by OMIM, Feb 2011]
Expression
Ubiquitous expression in brain (RPKM 33.6), thyroid (RPKM 19.6) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See NUDT3 in Genome Data Viewer
Location:
6p21.31
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (34279679..34392669, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (34103325..34216339, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (34247456..34360446, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17070 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17071 Neighboring gene small integral membrane protein 29 Neighboring gene ribosomal protein L35 pseudogene 2 Neighboring gene RPS10-NUDT3 readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24380 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:34292259-34292900 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:34294990-34295799 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24381 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34322011-34322510 Neighboring gene Sharpr-MPRA regulatory region 13549 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17072 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17073 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17074 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17075 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:34393285-34393989 Neighboring gene ribosomal protein S10 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17077 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17078 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24382 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34440734-34441492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24383 Neighboring gene protein kinase C and casein kinase substrate in neurons 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:34457197-34457701 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34481139-34482042 Neighboring gene Sharpr-MPRA regulatory region 11676 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34484751-34485653 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17079 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34495675-34496656 Neighboring gene Sharpr-MPRA regulatory region 1455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:34502315-34502814

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index.
EBI GWAS Catalog
Identification of 15 loci influencing height in a Korean population.
EBI GWAS Catalog
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
EBI GWAS Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of nudix (nucleoside diphosphate linked moiety X)-type motif 3 (NUDT3) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough RPS10-NUDT3

Readthrough gene: RPS10-NUDT3, Included gene: RPS10

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA] diphosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity IDA
Inferred from Direct Assay
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables endopolyphosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables endopolyphosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables inositol diphosphate pentakisphosphate diphosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables inositol diphosphate pentakisphosphate diphosphatase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables inositol diphosphate tetrakisphosphate diphosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables inositol diphosphate tetrakisphosphate diphosphatase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables manganese ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding 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
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
diphosphoinositol polyphosphate phosphohydrolase 1
Names
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 motif 3
NP_006694.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_006703.4NP_006694.1  diphosphoinositol polyphosphate phosphohydrolase 1

    See identical proteins and their annotated locations for NP_006694.1

    Status: VALIDATED

    Source sequence(s)
    AL354740, BC007727, CA430332, DA803962, Z98036
    Consensus CDS
    CCDS4791.1
    UniProtKB/Swiss-Prot
    B2R8N4, O95989
    Related
    ENSP00000476119.1, ENST00000607016.2
    Conserved Domains (1) summary
    cd04666
    Location:19131
    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_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    34279679..34392669 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    34103325..34216339 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)