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Aliases for NUDT4 Gene

Aliases for NUDT4 Gene

  • Nudix Hydrolase 4 2 3 5
  • Nudix (Nucleoside Diphosphate Linked Moiety X)-Type Motif 4 2 3
  • Diphosphoinositol Polyphosphate Phosphohydrolase Type 2 2 3
  • Diadenosine 5,5-P1,P6-Hexaphosphate Hydrolase 2 3 4
  • DIPP-2 3 4
  • DIPP2 3 4
  • Diphosphoinositol Polyphosphate Phosphohydrolase 2 3
  • Nucleoside Diphosphate-Linked Moiety X Motif 4 4
  • Nudix Motif 4 4
  • EC 3.6.1.52 4
  • DIPP2alpha 3
  • EC 3.6.1.- 4
  • DIPP2beta 3
  • HDCMB47P 3
  • KIAA0487 4

External Ids for NUDT4 Gene

Previous GeneCards Identifiers for NUDT4 Gene

  • GC12P094293
  • GC12P093704
  • GC12P092274
  • GC12P093771

Summaries for NUDT4 Gene

Entrez Gene Summary for NUDT4 Gene

  • The protein encoded by this gene regulates the turnover of diphosphoinositol polyphosphates. The turnover of these high-energy diphosphoinositol polyphosphates represents a molecular switching activity with important regulatory consequences. Molecular switching by diphosphoinositol polyphosphates may contribute to regulating intracellular trafficking. Several alternatively spliced transcript variants have been described, but the full-length nature of some variants has not been determined. Isoforms DIPP2alpha and DIPP2beta are distinguishable from each other solely by DIPP2beta possessing one additional amino acid due to intron boundary skidding in alternate splicing. [provided by RefSeq, Jul 2008]

GeneCards Summary for NUDT4 Gene

NUDT4 (Nudix Hydrolase 4) is a Protein Coding gene. Among its related pathways are Metabolism and Inositol phosphate metabolism (REACTOME). GO annotations related to this gene include hydrolase activity and m7G(5)pppN diphosphatase activity. An important paralog of this gene is NUDT11.

UniProtKB/Swiss-Prot for NUDT4 Gene

  • Cleaves a beta-phosphate from the diphosphate groups in PP-InsP5 (diphosphoinositol pentakisphosphate), PP-InsP4 and [PP]2-InsP4 (bisdiphosphoinositol tetrakisphosphate), suggesting that it may play a role in signal transduction. Also able to catalyze the hydrolysis of dinucleoside oligophosphate Ap6A, but not Ap5A. The major reaction products are ADP and p4a from Ap6A. Also able to hydrolyze 5-phosphoribose 1-diphosphate. Does not play a role in U8 snoRNA decapping activity. Binds U8 snoRNA.

Gene Wiki entry for NUDT4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NUDT4 Gene

Genomics for NUDT4 Gene

Regulatory Elements for NUDT4 Gene

Enhancers for NUDT4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F093373 1.7 FANTOM5 Ensembl ENCODE 17 -3.9 -3896 1.7 ATF1 ARNT ELK1 GATA2 JUNB NCOA1 REST SMARCB1 CREB3 MAFF ENSG00000257252 NUDT4 ENSG00000257512 ENSG00000271382 CRADD GC12P093373 LOC643339
GH12F093126 0.6 Ensembl ENCODE 9.4 -250.2 -250205 2.2 PKNOX1 ATF1 MLX ZFP64 ARID4B DMAP1 ZNF48 YY1 SP5 ZHX2 NUDT4 NACAP3 GC12M093120
GH12F093375 1 FANTOM5 ENCODE 7.4 +1.0 982 6.7 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A ZNF2 YY1 FOS ENSG00000257252 ENSG00000257512 NUDT4 UBE2N MRPL42 PIR61938 GC12P093403 GC12P093405
GH12F093237 0.6 Ensembl 5 -140.2 -140183 0.2 ATF3 CEBPA HNF4G CEBPB ZBTB33 RAD21 NR2F2 YY1 ENSG00000257252 NUDT4 PIR40965 GC12P093267
GH12F093134 1.5 FANTOM5 Ensembl ENCODE 4.5 -240.6 -240615 6.3 ATF1 PKNOX1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 CBX5 FOS NUDT4 EEA1 GC12M093135 GC12M093136
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around NUDT4 on UCSC Golden Path with GeneCards custom track

Promoters for NUDT4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001465999 1217 5801 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A ZNF2 YY1 FOS

Genomic Location for NUDT4 Gene

Chromosome:
12
Start:
93,377,883 bp from pter
End:
93,408,146 bp from pter
Size:
30,264 bases
Orientation:
Plus strand

Genomic View for NUDT4 Gene

Genes around NUDT4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NUDT4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NUDT4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NUDT4 Gene

Proteins for NUDT4 Gene

  • Protein details for NUDT4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NZJ9-NUDT4_HUMAN
    Recommended name:
    Diphosphoinositol polyphosphate phosphohydrolase 2
    Protein Accession:
    Q9NZJ9
    Secondary Accessions:
    • B7Z916
    • Q4AEJ6
    • Q53EZ2
    • Q68DD7
    • Q9NPC5
    • Q9NS30
    • Q9NZK0
    • Q9NZK1

    Protein attributes for NUDT4 Gene

    Size:
    180 amino acids
    Molecular mass:
    20306 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAF75563.1; Type=Erroneous termination; Positions=181; Note=Translated as stop.; Evidence={ECO:0000305}; Sequence=BAE16985.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for NUDT4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NUDT4 Gene

Post-translational modifications for NUDT4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Abcam antibodies for NUDT4

No data available for DME Specific Peptides for NUDT4 Gene

Domains & Families for NUDT4 Gene

Gene Families for NUDT4 Gene

Protein Domains for NUDT4 Gene

Suggested Antigen Peptide Sequences for NUDT4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NZJ9

UniProtKB/Swiss-Prot:

NUDT4_HUMAN :
  • Contains 1 nudix hydrolase domain.
  • Belongs to the Nudix hydrolase family. DIPP subfamily.
Domain:
  • Contains 1 nudix hydrolase domain.
Family:
  • Belongs to the Nudix hydrolase family. DIPP subfamily.
genes like me logo Genes that share domains with NUDT4: view

Function for NUDT4 Gene

Molecular function for NUDT4 Gene

UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=4.2 nM for PP-InsP5 {ECO:0000269 PubMed:10777568};
UniProtKB/Swiss-Prot CatalyticActivity:
Diphospho-myo-inositol polyphosphate + H(2)O = myo-inositol polyphosphate + phosphate.
UniProtKB/Swiss-Prot Function:
Cleaves a beta-phosphate from the diphosphate groups in PP-InsP5 (diphosphoinositol pentakisphosphate), PP-InsP4 and [PP]2-InsP4 (bisdiphosphoinositol tetrakisphosphate), suggesting that it may play a role in signal transduction. Also able to catalyze the hydrolysis of dinucleoside oligophosphate Ap6A, but not Ap5A. The major reaction products are ADP and p4a from Ap6A. Also able to hydrolyze 5-phosphoribose 1-diphosphate. Does not play a role in U8 snoRNA decapping activity. Binds U8 snoRNA.

Enzyme Numbers (IUBMB) for NUDT4 Gene

Gene Ontology (GO) - Molecular Function for NUDT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000298 endopolyphosphatase activity IBA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0008486 diphosphoinositol-polyphosphate diphosphatase activity IDA,TAS 10777568
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with NUDT4: view
genes like me logo Genes that share phenotypes with NUDT4: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NUDT4 Gene

Localization for NUDT4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NUDT4 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for NUDT4 Gene COMPARTMENTS Subcellular localization image for NUDT4 gene
Compartment Confidence
cytosol 4
nucleus 2

Gene Ontology (GO) - Cellular Components for NUDT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular TAS 10777568
GO:0005634 nucleus IBA --
GO:0005737 cytoplasm IEA,IBA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with NUDT4: view

Pathways & Interactions for NUDT4 Gene

genes like me logo Genes that share pathways with NUDT4: view

Pathways by source for NUDT4 Gene

Gene Ontology (GO) - Biological Process for NUDT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009187 cyclic nucleotide metabolic process TAS 10777568
GO:0019722 calcium-mediated signaling TAS 10777568
GO:0019935 cyclic-nucleotide-mediated signaling TAS 10777568
GO:0035556 intracellular signal transduction NAS 10777568
GO:0043647 inositol phosphate metabolic process TAS --
genes like me logo Genes that share ontologies with NUDT4: view

No data available for SIGNOR curated interactions for NUDT4 Gene

Drugs & Compounds for NUDT4 Gene

(4) Drugs for NUDT4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
Manganese Approved Nutra 34
Magnesium Nutra 0

(3) Additional Compounds for NUDT4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
5-Diphosphoinositol pentakisphosphate
  • 1,2,3,4,6-Pentakis-O-phosphono-1D-myo-inositol 5-(trihydrogen diphosphate)
  • 1D-Myo-inositol 5-diphosphate pentakisphosphate
  • 5-Diphospho-1D-myo-inositol 1,2,3,4,6-pentakisphosphate
  • 5-Diphospho-1D-myo-inositol pentakisphosphate
  • 5-PP-InsP5
Myo-inositol hexakisphosphate
  • 1D-Myo-Inositol 1,2,3,4,5,6-hexakisphosphate
  • 1D-Myo-inositol hexakisphosphate
  • D-Myo-Inositol 1,2,3,4,5,6-hexakisphosphate
  • Inositol 1,2,3,4,5,6-hexakisphosphate
  • Myo-Inositol 1,2,3,4,5,6-hexakisphosphate
83-86-3
Phosphate
  • NFB Orthophosphate
  • O-Phosphoric acid
  • Ortho-phosphate
  • Orthophosphate (PO43-)
  • Orthophosphate(3-)
14265-44-2
genes like me logo Genes that share compounds with NUDT4: view

Transcripts for NUDT4 Gene

Unigene Clusters for NUDT4 Gene

Nudix (nucleoside diphosphate linked moiety X)-type motif 4:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NUDT4 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d
SP1:
SP2: - - - - - -
SP3: - - - - - -
SP4: - - - - -
SP5: - - -
SP6: - - - - - - -
SP7: -

Relevant External Links for NUDT4 Gene

GeneLoc Exon Structure for
NUDT4
ECgene alternative splicing isoforms for
NUDT4

Expression for NUDT4 Gene

mRNA expression in normal human tissues for NUDT4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NUDT4 Gene

This gene is overexpressed in Heart - Left Ventricle (x5.2).

Protein differential expression in normal tissues from HIPED for NUDT4 Gene

This gene is overexpressed in Skin (16.2), Ovary (6.5), and Salivary gland (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NUDT4 Gene



Protein tissue co-expression partners for NUDT4 Gene

NURSA nuclear receptor signaling pathways regulating expression of NUDT4 Gene:

NUDT4

SOURCE GeneReport for Unigene cluster for NUDT4 Gene:

Hs.506325

mRNA Expression by UniProt/SwissProt for NUDT4 Gene:

Q9NZJ9-NUDT4_HUMAN
Tissue specificity: Expressed in heart and, at lower level in skeletal muscle, pancreas and kidney.
genes like me logo Genes that share expression patterns with NUDT4: view

Primer Products

Orthologs for NUDT4 Gene

This gene was present in the common ancestor of animals.

Orthologs for NUDT4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NUDT4 34 35
  • 99.82 (n)
cow
(Bos Taurus)
Mammalia -- 35
  • 96 (a)
OneToMany
NUDT4 34 35
  • 91.9 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 96 (a)
OneToMany
dog
(Canis familiaris)
Mammalia NUDT4 34 35
  • 94.11 (n)
mouse
(Mus musculus)
Mammalia Nudt4 34 16 35
  • 90.32 (n)
rat
(Rattus norvegicus)
Mammalia Nudt4 34
  • 88.08 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 84 (a)
ManyToMany
-- 35
  • 73 (a)
ManyToMany
-- 35
  • 61 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 35
  • 88 (a)
OneToMany
NUDT4 34
  • 80.31 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 94 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia nudt4 34
  • 80.19 (n)
Str.6375 34
zebrafish
(Danio rerio)
Actinopterygii nudt4b 34 35
  • 68.79 (n)
nudt4a 35
  • 62 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta CG6391 36
  • 58 (a)
Aps 35
  • 53 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y92H12BL.5 35
  • 38 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8787 35
  • 40 (a)
OneToMany
Species where no ortholog for NUDT4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NUDT4 Gene

ENSEMBL:
Gene Tree for NUDT4 (if available)
TreeFam:
Gene Tree for NUDT4 (if available)

Paralogs for NUDT4 Gene

Paralogs for NUDT4 Gene

(4) SIMAP similar genes for NUDT4 Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for NUDT4 Gene

genes like me logo Genes that share paralogs with NUDT4: view

Variants for NUDT4 Gene

Sequence variations from dbSNP and Humsavar for NUDT4 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1054829 -- 93,399,306(-) GGGAA(C/G)GGACT reference, missense
rs10643767 -- 93,396,220(+) GCAAA(-/TAT)TATTA intron-variant
rs10859488 -- 93,381,984(+) CAGGC(A/G)GGTGG intron-variant
rs10859489 -- 93,382,807(+) CAGGC(A/G)GCCGC intron-variant
rs10859490 -- 93,383,200(+) TTTAC(A/C)ACATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NUDT4 Gene

Variant ID Type Subtype PubMed ID
dgv851n106 CNV duplication 24896259
esv23701 CNV loss 19812545
esv3630396 CNV loss 21293372
nsv1044304 CNV gain 25217958
nsv518120 CNV loss 19592680
nsv7234 OTHER inversion 18451855
nsv822 CNV deletion 18451855
nsv952465 CNV duplication 24416366
nsv973103 CNV duplication 23825009

Variation tolerance for NUDT4 Gene

Residual Variation Intolerance Score: 72.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.01; 0.28% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NUDT4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NUDT4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NUDT4 Gene

Disorders for NUDT4 Gene

Relevant External Links for NUDT4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NUDT4

No disorders were found for NUDT4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NUDT4 Gene

Publications for NUDT4 Gene

  1. Discovery of molecular and catalytic diversity among human diphosphoinositol-polyphosphate phosphohydrolases. The expanding NUDT family. (PMID: 10777568) Caffrey J.J. … Shears S.B. (J. Biol. Chem. 2000) 2 3 4 22 64
  2. Genetic rationale for microheterogeneity of human diphosphoinositol polyphosphate phosphohydrolase type 2. (PMID: 11376937) Caffrey J.J. … Shears S.B. (Gene 2001) 2 3 22 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Cloning and characterisation of hAps1 and hAps2, human diadenosine polyphosphate-metabolising Nudix hydrolases. (PMID: 12121577) Leslie N.R. … Safrany S.T. (BMC Biochem. 2002) 3 4 64
  5. Nudix hydrolases that degrade dinucleoside and diphosphoinositol polyphosphates also have 5-phosphoribosyl 1-pyrophosphate (PRPP) pyrophosphatase activity that generates the glycolytic activator ribose 1,5-bisphosphate. (PMID: 12370170) Fisher D.I. … Cartwright J.L. (J. Biol. Chem. 2002) 3 4 64

Products for NUDT4 Gene

Sources for NUDT4 Gene

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