Aliases for NME3 Gene

Aliases for NME3 Gene

  • NME/NM23 Nucleoside Diphosphate Kinase 3 2 3 5
  • DR-Nm23 2 3 4
  • NDPKC 2 3 4
  • Non-Metastatic Cells 3, Protein Expressed In 2 3
  • Nucleoside Diphosphate Kinase 3 3 4
  • Nucleoside Diphosphate Kinase C 3 4
  • NDP Kinase 3 3 4
  • EC 2.7.4.6 4 51
  • NM23-H3 2 3
  • NDK 3 3 4
  • NDP Kinase C 3
  • C371H6.2 3
  • Nm23-H3 4
  • NDPK-C 3
  • NM23H3 3
  • NME3 5

External Ids for NME3 Gene

Previous GeneCards Identifiers for NME3 Gene

  • GC16M001837
  • GC16M001760
  • GC16M001820

Summaries for NME3 Gene

GeneCards Summary for NME3 Gene

NME3 (NME/NM23 Nucleoside Diphosphate Kinase 3) is a Protein Coding gene. Diseases associated with NME3 include Hyperpigmentation With Or Without Hypopigmentation, Familial Progressive and Nephronophthisis. Among its related pathways are superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis and ATP/ITP metabolism. Gene Ontology (GO) annotations related to this gene include nucleoside diphosphate kinase activity. An important paralog of this gene is NME1.

UniProtKB/Swiss-Prot Summary for NME3 Gene

  • Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate. Probably has a role in normal hematopoiesis by inhibition of granulocyte differentiation and induction of apoptosis.

Gene Wiki entry for NME3 Gene

Additional gene information for NME3 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NME3 Gene

Genomics for NME3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for NME3 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NME3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NME3

Top Transcription factor binding sites by QIAGEN in the NME3 gene promoter:
  • E47
  • GATA-1
  • GATA-2
  • Olf-1
  • Pax-5
  • Roaz
  • Tal-1
  • USF-1
  • USF1
  • YY1

Genomic Locations for NME3 Gene

Genomic Locations for NME3 Gene
chr16:1,770,286-1,771,750
(GRCh38/hg38)
Size:
1,465 bases
Orientation:
Minus strand
chr16:1,820,287-1,821,731
(GRCh37/hg19)
Size:
1,445 bases
Orientation:
Minus strand

Genomic View for NME3 Gene

Genes around NME3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NME3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NME3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NME3 Gene

Proteins for NME3 Gene

  • Protein details for NME3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13232-NDK3_HUMAN
    Recommended name:
    Nucleoside diphosphate kinase 3
    Protein Accession:
    Q13232
    Secondary Accessions:
    • Q9BWH4

    Protein attributes for NME3 Gene

    Size:
    169 amino acids
    Molecular mass:
    19015 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for NME3 Gene

neXtProt entry for NME3 Gene

Selected DME Specific Peptides for NME3 Gene

Q13232:
  • HGSDSVE
  • SGPVVAMV
  • REIALWF
  • PGTIRGD
  • KPDGVQR

Post-translational modifications for NME3 Gene

  • Ubiquitination at Lys29 and Lys51
  • Modification sites at PhosphoSitePlus

Domains & Families for NME3 Gene

Gene Families for NME3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for NME3 Gene

InterPro:
Blocks:
  • Nucleoside diphosphate kinase
ProtoNet:

Suggested Antigen Peptide Sequences for NME3 Gene

GenScript: Design optimal peptide antigens:
  • nm23-H3 (NDK3_HUMAN)
  • Nucleoside diphosphate kinase (Q9NUF9_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q13232

UniProtKB/Swiss-Prot:

NDK3_HUMAN :
  • Belongs to the NDK family.
Family:
  • Belongs to the NDK family.
genes like me logo Genes that share domains with NME3: view

Function for NME3 Gene

Molecular function for NME3 Gene

UniProtKB/Swiss-Prot Function:
Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate. Probably has a role in normal hematopoiesis by inhibition of granulocyte differentiation and induction of apoptosis.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=a 2'-deoxyribonucleoside 5'-diphosphate + ATP = a 2'-deoxyribonucleoside 5'-triphosphate + ADP; Xref=Rhea:RHEA:44640, ChEBI:CHEBI:30616, ChEBI:CHEBI:61560, ChEBI:CHEBI:73316, ChEBI:CHEBI:456216; EC=2.7.4.6;.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=a ribonucleoside 5'-diphosphate + ATP = a ribonucleoside 5'-triphosphate + ADP; Xref=Rhea:RHEA:18113, ChEBI:CHEBI:30616, ChEBI:CHEBI:57930, ChEBI:CHEBI:61557, ChEBI:CHEBI:456216; EC=2.7.4.6;.
GENATLAS Biochemistry:
non-metastatic cells 3,protein,with a nm23 nucleoside diphosphate kinase gene family,preferentially expressed at early stage of myeloid differentiation,involved in the phosphorylation of nucleoside diphophates,inhibiting granulocyte differentiation and inducing apoptosis

Enzyme Numbers (IUBMB) for NME3 Gene

Phenotypes From GWAS Catalog for NME3 Gene

Gene Ontology (GO) - Molecular Function for NME3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0004550 nucleoside diphosphate kinase activity IEA,IBA 21873635
GO:0005515 protein binding IPI 16189514
GO:0005524 ATP binding IEA --
GO:0016301 kinase activity IEA --
genes like me logo Genes that share ontologies with NME3: view
genes like me logo Genes that share phenotypes with NME3: view

Animal Models for NME3 Gene

MGI Knock Outs for NME3:

Animal Model Products

  • Taconic Biosciences Mouse Models for NME3

CRISPR Products

miRNA for NME3 Gene

miRTarBase miRNAs that target NME3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NME3

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NME3 Gene

Localization for NME3 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NME3 gene
Compartment Confidence
cytosol 4
extracellular 3
mitochondrion 2
plasma membrane 1
cytoskeleton 1
nucleus 1
endoplasmic reticulum 1
endosome 1
lysosome 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NME3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with NME3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for NME3 Gene

Pathways & Interactions for NME3 Gene

genes like me logo Genes that share pathways with NME3: view

Gene Ontology (GO) - Biological Process for NME3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006163 purine nucleotide metabolic process IBA --
GO:0006165 nucleoside diphosphate phosphorylation IEA --
GO:0006183 GTP biosynthetic process IEA --
GO:0006220 pyrimidine nucleotide metabolic process IBA --
GO:0006228 UTP biosynthetic process IEA --
genes like me logo Genes that share ontologies with NME3: view

No data available for SIGNOR curated interactions for NME3 Gene

Drugs & Compounds for NME3 Gene

(12) Drugs for NME3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Magnesium Approved, Experimental, Investigational Pharma 0
CDP Experimental Pharma 0
Cytidine triphosphate Experimental Pharma 0
dATP Experimental Pharma Agonist, Full agonist 0
dctp Experimental Pharma 0

(11) Additional Compounds for NME3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
2'-Deoxyinosine triphosphate
  • 2'-Deoxyinosine 5'-triphosphate
  • 2'-Deoxyinosine-5'-triphosphate
  • Deoxyinosine 5'-triphosphate
  • 2'-Deoxyinosine 5'-triphosphoric acid
  • 2'-Deoxyinosine triphosphoric acid
16595-02-1
ADP
  • 5'-Adenylphosphoric acid
  • Adenosine 5'-diphosphate
  • ADENOSINE-5'-diphosphATE
  • H3ADP
  • 5'-Adenylphosphate
Agonist, Full agonist, Partial agonist, Gating inhibitor, Antagonist 58-64-0
dADP
  • 2'-Deoxyadenosine-5'-diphosphate
  • Deoxyadenosine diphosphate
2793-06-8
dcdp
  • 2'-Deoxycytidine 5'-diphosphate
  • 2'-Deoxycytidine diphosphate
  • D-1beta-Ribofuranosylcytosine diphosphate
  • Deoxycytidine diphosphate
  • 2'-Deoxycytidine 5'-diphosphoric acid
800-73-7
Deoxyuridine triphosphate
  • 2'-Deoxyuridine 5'-triphosphate
  • 2'-Deoxyuridine 5'-triphosphoric acid
  • Deoxyuridine triphosphoric acid
  • 2'-Deoxyuridine-5'-triphosphorate
  • 2'-Deoxyuridine-5'-triphosphoric acid
1173-82-6
genes like me logo Genes that share compounds with NME3: view

Transcripts for NME3 Gene

mRNA/cDNA for NME3 Gene

1 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
11 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NME3

Alternative Splicing Database (ASD) splice patterns (SP) for NME3 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c ^ 5a · 5b · 5c · 5d · 5e · 5f
SP1: - - - -
SP2: - - - -
SP3: - - - - -
SP4: - - -
SP5: - -
SP6:
SP7: -

Relevant External Links for NME3 Gene

GeneLoc Exon Structure for
NME3

Expression for NME3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NME3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for NME3 Gene

This gene is overexpressed in Nasal epithelium (16.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NME3 Gene



Protein tissue co-expression partners for NME3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NME3

SOURCE GeneReport for Unigene cluster for NME3 Gene:

Hs.514065

Evidence on tissue expression from TISSUES for NME3 Gene

  • Eye(4.2)
  • Nervous system(2.9)
  • Skin(2.4)
  • Kidney(2)
genes like me logo Genes that share expression patterns with NME3: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NME3 Gene

Orthologs for NME3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NME3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia NME3 30 31
  • 99.01 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia NME3 30 31
  • 90.93 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia NME3 30 31
  • 86.88 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia NME3 31
  • 85 (a)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Nme3 30
  • 83.04 (n)
Mouse
(Mus musculus)
Mammalia Nme3 30 17 31
  • 82.64 (n)
OneToOne
Chicken
(Gallus gallus)
Aves NME4 30
  • 77.48 (n)
NME3 31
  • 67 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia nme3 30
  • 71.4 (n)
Str.10886 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.33976 30
Zebrafish
(Danio rerio)
Actinopterygii nme3 30 31
  • 68.06 (n)
OneToOne
ndpkz3 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10233 30
Fruit Fly
(Drosophila melanogaster)
Insecta awd 31 32
  • 60 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea F25H2.5 32
  • 57 (a)
ndk-1 31
  • 56 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YNK1 31
  • 58 (a)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons NDPK2 30
  • 52.48 (n)
Rice
(Oryza sativa)
Liliopsida Os12g0548300 30
  • 56.53 (n)
Barley
(Hordeum vulgare)
Liliopsida Hv.704 30
Wheat
(Triticum aestivum)
Liliopsida Ta.2227 30
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 60 (a)
OneToMany
Species where no ortholog for NME3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for NME3 Gene

ENSEMBL:
Gene Tree for NME3 (if available)
TreeFam:
Gene Tree for NME3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NME3: view image

Paralogs for NME3 Gene

Paralogs for NME3 Gene

(8) SIMAP similar genes for NME3 Gene using alignment to 5 proteins:

  • NDK3_HUMAN
  • H3BMQ7_HUMAN
  • H3BPD9_HUMAN
  • H3BPR2_HUMAN
  • H3BRA8_HUMAN
genes like me logo Genes that share paralogs with NME3: view

Variants for NME3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NME3 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
728514 Likely Benign: not provided 1,771,515(-) G/A MISSENSE_VARIANT
783727 Benign: not provided 1,771,330(-) G/A MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for NME3 Gene

Structural Variations from Database of Genomic Variants (DGV) for NME3 Gene

Variant ID Type Subtype PubMed ID
dgv4856n54 CNV loss 21841781
esv2422427 CNV duplication 17116639
esv3892756 CNV loss 25118596
nsv1051692 CNV loss 25217958
nsv1160328 CNV deletion 26073780
nsv457335 CNV loss 19166990
nsv457336 CNV loss 19166990
nsv471069 CNV loss 18288195
nsv517196 CNV gain+loss 19592680
nsv518641 CNV loss 19592680
nsv571169 CNV loss 21841781
nsv571170 CNV loss 21841781
nsv571171 CNV gain+loss 21841781
nsv571172 CNV loss 21841781
nsv571173 CNV loss 21841781
nsv827500 CNV gain 20364138
nsv952900 CNV deletion 24416366

Variation tolerance for NME3 Gene

Residual Variation Intolerance Score: 83.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.09; 38.22% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NME3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NME3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NME3 Gene

Disorders for NME3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for NME3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hyperpigmentation with or without hypopigmentation, familial progressive
  • fphh
nephronophthisis
  • medullary cystic disease
- elite association - COSMIC cancer census association via MalaCards
Search NME3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NME3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with NME3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NME3 Gene

Publications for NME3 Gene

  1. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 41
  2. Nme protein family evolutionary history, a vertebrate perspective. (PMID: 19852809) Desvignes T … Bobe J (BMC evolutionary biology 2009) 2 3
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. Sequence, structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16. (PMID: 11157797) Daniels RJ … Higgs DR (Human molecular genetics 2001) 3 4
  5. Structural and catalytic properties and homology modelling of the human nucleoside diphosphate kinase C, product of the DRnm23 gene. (PMID: 11277919) Erent M … Lascu I (European journal of biochemistry 2001) 3 23

Products for NME3 Gene

  • Signalway Proteins for NME3

Sources for NME3 Gene