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Aliases for NPM2 Gene

Aliases for NPM2 Gene

  • Nucleophosmin/Nucleoplasmin 2 2 3 5
  • Nucleoplasmin-2 3

External Ids for NPM2 Gene

Previous GeneCards Identifiers for NPM2 Gene

  • GC00U990477
  • GC08U900224
  • GC08P021903
  • GC08P021904
  • GC08P021939
  • GC08P021881
  • GC08P020424

Summaries for NPM2 Gene

GeneCards Summary for NPM2 Gene

NPM2 (Nucleophosmin/Nucleoplasmin 2) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and enzyme binding. An important paralog of this gene is NPM1.

UniProtKB/Swiss-Prot for NPM2 Gene

  • Core histones chaperone involved in chromatin reprogramming, specially during fertilization and early embryonic development. Probably involved in sperm DNA decondensation during fertilization.

Additional gene information for NPM2 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NPM2 Gene

Genomics for NPM2 Gene

GeneHancer (GH) Regulatory Elements for NPM2 Gene

Promoters and enhancers for NPM2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08I022023 Promoter/Enhancer 1.5 EPDnew Ensembl ENCODE 555.8 +1.1 1076 1.9 ELF3 MLX ARID4B DMAP1 DNMT3B ZNF48 CEBPB USF2 REST ELF1 NPM2 FGF17
GH08I021917 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 13.2 -103.6 -103593 4.3 HDGF PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A YY1 ZNF766 ZNF207 XPO7 ENSG00000253200 BIN3 FGF17 FAM160B2 NPM2 C8orf58 POLR3D GFRA2 DMTN
GH08I022164 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 10.6 +144.0 144045 6.8 ARID4B SIN3A ZNF766 ZNF143 ZNF548 SP3 SP5 MXD4 REST ZNF592 BMP1 ENSG00000177725 C8orf58 FAM160B2 ENSG00000253200 LOC107986927 SORBS3 REEP4 NPM2 POLR3D
GH08I021907 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 11.4 -112.3 -112256 7.8 PKNOX1 ARID4B IRF4 TCF12 ZNF766 GLIS2 ARID2 ZNF143 ATF7 FOS DOK2 FGF17 NPM2 HR GFRA2 GC08M021903
GH08I022177 Enhancer 1 ENCODE dbSUPER 10.4 +155.1 155055 2.8 FOXA2 ARID4B KLF17 SIN3A ZNF121 GLIS2 EGR1 FOS EGR2 SP3 LGI3 SFTPC XPO7 NPM2 FGF17 PIWIL2 LOC100507071 CCAR2 BMP1 LOC101929237
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NPM2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NPM2 gene promoter:

Genomic Locations for NPM2 Gene

Genomic Locations for NPM2 Gene
13,190 bases
Plus strand

Genomic View for NPM2 Gene

Genes around NPM2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NPM2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NPM2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NPM2 Gene

Proteins for NPM2 Gene

  • Protein details for NPM2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B3KSU0
    • D3DSQ8
    • Q6NVH6

    Protein attributes for NPM2 Gene

    214 amino acids
    Molecular mass:
    24152 Da
    Quaternary structure:
    • Homopentamer, when bound to H2A-H2B dimers only. Homodecamer of two stacked pentamers, when bound to H2A-H2B dimers and H3-H4 tetramers simultaneously.

    Three dimensional structures from OCA and Proteopedia for NPM2 Gene

    Alternative splice isoforms for NPM2 Gene


neXtProt entry for NPM2 Gene

Post-translational modifications for NPM2 Gene

No Post-translational modifications

No data available for DME Specific Peptides for NPM2 Gene

Domains & Families for NPM2 Gene

Gene Families for NPM2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for NPM2 Gene

Suggested Antigen Peptide Sequences for NPM2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • The acidic tract A2 mediates histone binding.
  • Belongs to the nucleoplasmin family.
  • The acidic tract A2 mediates histone binding.
  • Belongs to the nucleoplasmin family.
genes like me logo Genes that share domains with NPM2: view

Function for NPM2 Gene

Molecular function for NPM2 Gene

UniProtKB/Swiss-Prot Function:
Core histones chaperone involved in chromatin reprogramming, specially during fertilization and early embryonic development. Probably involved in sperm DNA decondensation during fertilization.

Phenotypes From GWAS Catalog for NPM2 Gene

Gene Ontology (GO) - Molecular Function for NPM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003682 chromatin binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0019899 enzyme binding IEA --
GO:0042393 histone binding TAS 12581654
genes like me logo Genes that share ontologies with NPM2: view
genes like me logo Genes that share phenotypes with NPM2: view

Animal Models for NPM2 Gene

MGI Knock Outs for NPM2:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for NPM2 Gene

Localization for NPM2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NPM2 Gene

Nucleus. Note=Found in the oocyte nucleus before nuclear membrane breakdown, after which it is redistributed to the cytoplasm. {ECO:0000250}.

Subcellular locations from

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 NPM2 gene
Compartment Confidence
nucleus 5
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NPM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000789 cytoplasmic chromatin IDA 12714744
GO:0000790 nuclear chromatin IDA 12714744
GO:0005634 nucleus IEA,IDA 12714744
genes like me logo Genes that share ontologies with NPM2: view

Pathways & Interactions for NPM2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NPM2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006338 chromatin remodeling IDA 12714744
GO:0007096 regulation of exit from mitosis IMP 12714744
GO:0007275 multicellular organism development IEA --
GO:0007338 single fertilization IMP 12714744
GO:0009790 embryo development IMP 12714744
genes like me logo Genes that share ontologies with NPM2: view

No data available for Pathways by source and SIGNOR curated interactions for NPM2 Gene

Drugs & Compounds for NPM2 Gene

No Compound Related Data Available

Transcripts for NPM2 Gene

Unigene Clusters for NPM2 Gene

Nucleophosmin/nucleoplasmin 2:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NPM2 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10
SP1: - -
SP4: - -
SP5: - - -
SP6: - - -
SP7: -

Relevant External Links for NPM2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NPM2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NPM2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NPM2 Gene

This gene is overexpressed in Brain - Cortex (x6.5), Brain - Frontal Cortex (BA9) (x5.6), and Brain - Anterior cingulate cortex (BA24) (x5.2).

Protein differential expression in normal tissues from HIPED for NPM2 Gene

This gene is overexpressed in Spinal cord (37.6), Frontal cortex (15.3), and Retina (14.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NPM2 Gene

Protein tissue co-expression partners for NPM2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of NPM2 Gene:


SOURCE GeneReport for Unigene cluster for NPM2 Gene:


Evidence on tissue expression from TISSUES for NPM2 Gene

  • Nervous system(4.5)
  • Skin(4.1)
genes like me logo Genes that share expression patterns with NPM2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NPM2 Gene

Orthologs for NPM2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for NPM2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NPM2 33 34
  • 99.37 (n)
(Canis familiaris)
Mammalia NPM2 33 34
  • 77.93 (n)
(Rattus norvegicus)
Mammalia Npm2 33
  • 75.49 (n)
(Bos Taurus)
Mammalia NPM2 33 34
  • 74.83 (n)
(Mus musculus)
Mammalia Npm2 33 16 34
  • 74.82 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 51 (a)
-- 34
  • 34 (a)
(Ornithorhynchus anatinus)
Mammalia NPM2 34
  • 48 (a)
(Anolis carolinensis)
Reptilia NPM2 34
  • 39 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia npm2 33
  • 56.2 (n)
African clawed frog
(Xenopus laevis)
Amphibia npm-A 33
(Danio rerio)
Actinopterygii npm2b 34
  • 36 (a)
Species where no ortholog for NPM2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for NPM2 Gene

Gene Tree for NPM2 (if available)
Gene Tree for NPM2 (if available)

Paralogs for NPM2 Gene

Paralogs for NPM2 Gene

(2) SIMAP similar genes for NPM2 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with NPM2: view

Variants for NPM2 Gene

Sequence variations from dbSNP and Humsavar for NPM2 Gene

SNP ID Clin Chr 08 pos Variation AA Info Type
rs1000081110 -- 22,027,510(+) A/T intron_variant
rs1000232951 -- 22,033,385(+) G/T intron_variant
rs1000342335 -- 22,029,836(+) T/C intron_variant
rs1000375747 -- 22,023,923(+) G/A 5_prime_UTR_variant, genic_upstream_transcript_variant, upstream_transcript_variant
rs1000557526 -- 22,027,716(+) C/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NPM2 Gene

Variant ID Type Subtype PubMed ID
nsv951112 CNV deletion 24416366
nsv831263 CNV loss 17160897
nsv610764 CNV loss 21841781
nsv528590 CNV loss 19592680
esv2759604 CNV loss 17122850
dgv7132n100 CNV gain 25217958

Variation tolerance for NPM2 Gene

Residual Variation Intolerance Score: 75.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.56; 44.55% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NPM2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NPM2 Gene

Disorders for NPM2 Gene

Additional Disease Information for NPM2

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for NPM2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NPM2 Gene

Publications for NPM2 Gene

  1. Roles of NPM2 in chromatin and nucleolar organization in oocytes and embryos. (PMID: 12714744) Burns KH … Matzuk MM (Science (New York, N.Y.) 2003) 2 3 4 58
  2. Centrosome-related genes, genetic variation, and risk of breast cancer. (PMID: 20508983) Olson JE … Couch FJ (Breast cancer research and treatment 2011) 3 44 58
  3. Crystal structure and function of human nucleoplasmin (npm2): a histone chaperone in oocytes and embryos. (PMID: 21863821) Platonova O … Akey CW (Biochemistry 2011) 3 4 58
  4. New insights into the nucleophosmin/nucleoplasmin family of nuclear chaperones. (PMID: 17187372) Frehlick LJ … Ausió J (BioEssays : news and reviews in molecular, cellular and developmental biology 2007) 4 22 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for NPM2 Gene

Sources for NPM2 Gene

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