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Aliases for CDKN3 Gene

Aliases for CDKN3 Gene

  • Cyclin-Dependent Kinase Inhibitor 3 2 3 5
  • Cyclin-Dependent Kinase-Interacting Protein 2 3 4
  • CDK2-Associated Dual Specificity Phosphatase 2 3
  • CDK2-Associated Dual-Specificity Phosphatase 3 4
  • Cyclin-Dependent Kinase Interactor 1 3 4
  • Kinase Associated Phosphatase 2 3
  • Kinase-Associated Phosphatase 3 4
  • CDI1 3 4
  • CIP2 3 4
  • KAP 3 4
  • Cyclin-Dependent Kinase Interacting Protein 2 3
  • Cdk-Associated Protein Phosphatase 3
  • Cyclin-Dependent Kinase Inhibitor 2
  • EC 4
  • EC 4
  • KAP1 3

External Ids for CDKN3 Gene

Previous GeneCards Identifiers for CDKN3 Gene

  • GC14P052187
  • GC14P048659
  • GC14P052853
  • GC14P053933
  • GC14P054863
  • GC14P035026

Summaries for CDKN3 Gene

Entrez Gene Summary for CDKN3 Gene

  • The protein encoded by this gene belongs to the dual specificity protein phosphatase family. It was identified as a cyclin-dependent kinase inhibitor, and has been shown to interact with, and dephosphorylate CDK2 kinase, thus prevent the activation of CDK2 kinase. This gene was reported to be deleted, mutated, or overexpressed in several kinds of cancers. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2008]

GeneCards Summary for CDKN3 Gene

CDKN3 (Cyclin-Dependent Kinase Inhibitor 3) is a Protein Coding gene. Diseases associated with CDKN3 include Hepatocellular Carcinoma and Bannayan-Riley-Ruvalcaba Syndrome. GO annotations related to this gene include phosphatase activity and phosphoprotein phosphatase activity.

UniProtKB/Swiss-Prot for CDKN3 Gene

  • May play a role in cell cycle regulation. Dual specificity phosphatase active toward substrates containing either phosphotyrosine or phosphoserine residues. Dephosphorylates CDK2 at Thr-160 in a cyclin-dependent manner.

Gene Wiki entry for CDKN3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDKN3 Gene

Genomics for CDKN3 Gene

Regulatory Elements for CDKN3 Gene

Enhancers for CDKN3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around CDKN3 on UCSC Golden Path with GeneCards custom track

Promoters for CDKN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CDKN3 on UCSC Golden Path with GeneCards custom track

Genomic Location for CDKN3 Gene

54,396,849 bp from pter
54,420,218 bp from pter
23,370 bases
Plus strand

Genomic View for CDKN3 Gene

Genes around CDKN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDKN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDKN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDKN3 Gene

Proteins for CDKN3 Gene

  • Protein details for CDKN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Cyclin-dependent kinase inhibitor 3
    Protein Accession:
    Secondary Accessions:
    • Q53ZU6
    • Q5U0M4
    • Q6P1N8
    • Q99585
    • Q9BPW7
    • Q9BY36
    • Q9C042
    • Q9C046
    • Q9C047
    • Q9C049
    • Q9C051
    • Q9C053

    Protein attributes for CDKN3 Gene

    212 amino acids
    Molecular mass:
    23805 Da
    Quaternary structure:
    • Interacts with cyclin-dependent kinases such as CDK1, CDK2 and CDK3. Does not interact with CDK4. Interacts (via C-terminus) with phosphorylated CDK2 (via C-terminal helix). Interacts with MS4A3 (via C-terminus); the interaction enhances CDKN3 enzymatic activity.

    Three dimensional structures from OCA and Proteopedia for CDKN3 Gene

    Alternative splice isoforms for CDKN3 Gene


neXtProt entry for CDKN3 Gene

Proteomics data for CDKN3 Gene at MOPED

Post-translational modifications for CDKN3 Gene

  • Ubiquitination at Lys 184
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CDKN3 Gene

Domains & Families for CDKN3 Gene

Gene Families for CDKN3 Gene

Protein Domains for CDKN3 Gene

Suggested Antigen Peptide Sequences for CDKN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the protein-tyrosine phosphatase family.
  • Belongs to the protein-tyrosine phosphatase family.
genes like me logo Genes that share domains with CDKN3: view

Function for CDKN3 Gene

Molecular function for CDKN3 Gene

GENATLAS Biochemistry:
cyclin dependent kinases CDC2 (CDK1) and CDK2 (CDC2/CDK2) inhibitor,expressed at the G1 to S transition of the cell cycle
UniProtKB/Swiss-Prot CatalyticActivity:
Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
UniProtKB/Swiss-Prot CatalyticActivity:
[a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate.
UniProtKB/Swiss-Prot Function:
May play a role in cell cycle regulation. Dual specificity phosphatase active toward substrates containing either phosphotyrosine or phosphoserine residues. Dephosphorylates CDK2 at Thr-160 in a cyclin-dependent manner.
UniProtKB/Swiss-Prot Induction:
Up-regulated in breast and prostate cancer cells.

Enzyme Numbers (IUBMB) for CDKN3 Gene

Gene Ontology (GO) - Molecular Function for CDKN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004721 phosphoprotein phosphatase activity IEA --
GO:0005515 protein binding IPI 8242750
GO:0016791 phosphatase activity IEA --
genes like me logo Genes that share ontologies with CDKN3: view
genes like me logo Genes that share phenotypes with CDKN3: view

Animal Model Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CDKN3 Gene

Localization for CDKN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDKN3 Gene

Cytoplasm, perinuclear region.

Subcellular locations from

Jensen Localization Image for CDKN3 Gene COMPARTMENTS Subcellular localization image for CDKN3 gene
Compartment Confidence
cytosol 4
nucleus 4

No data available for Gene Ontology (GO) - Cellular Components for CDKN3 Gene

Pathways & Interactions for CDKN3 Gene

SuperPathways for CDKN3 Gene

No Data Available

Pathways by source for CDKN3 Gene

1 GeneTex pathway for CDKN3 Gene

Gene Ontology (GO) - Biological Process for CDKN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000082 G1/S transition of mitotic cell cycle TAS 8127873
GO:0006470 protein dephosphorylation TAS 8242750
GO:0007050 cell cycle arrest IDA 8242750
GO:0035335 peptidyl-tyrosine dephosphorylation IEA --
genes like me logo Genes that share ontologies with CDKN3: view

No data available for SIGNOR curated interactions for CDKN3 Gene

Drugs & Compounds for CDKN3 Gene

(71) Drugs for CDKN3 Gene - From: ApexBio, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
AT7519 Investigational Pharma Multi-CDK inhibitor 0
calcium Nutra 0
Kenpaullone Pharma Potent cyclin-dependent kinase inhibitor. Also inhibits GSK-3 0
ML167 Pharma Clk4 inhibitor,highly selective 0
Nu 6027 Pharma ATR/CDK inhibitor, potent and selective 0

(63) Additional Compounds for CDKN3 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • NFB Orthophosphate
  • O-Phosphoric acid
  • Ortho-phosphate
  • Orthophosphate (PO43-)
  • Orthophosphate(3-)
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
  • Dihydrogen oxide
  • Steam

(8) ApexBio Compounds for CDKN3 Gene

Compound Action Cas Number
AT7519 Multi-CDK inhibitor 844442-38-2
Kenpaullone 142273-20-9
ML167 Clk4 inhibitor,highly selective 1285702-20-6
Nu 6027 ATR/CDK inhibitor, potent and selective 220036-08-8
PHA-848125 CDK inhibitor,potent and ATP-competitive 802539-81-7
Purvalanol B CDK1/CDK2/CDK4 inhibitor 212844-54-7
R547 CDK1/2/4 inhibitor,ATP-competitive 741713-40-6
Ro 3306 An ATP-competitive, potent CDK1 inhibitor 872573-93-8
genes like me logo Genes that share compounds with CDKN3: view

Transcripts for CDKN3 Gene

Unigene Clusters for CDKN3 Gene

Cyclin-dependent kinase inhibitor 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CDKN3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c · 8d
SP3: -
SP4: -
SP6: -

Relevant External Links for CDKN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CDKN3 Gene

mRNA expression in normal human tissues for CDKN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CDKN3 Gene

This gene is overexpressed in Testis (x23.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for CDKN3 Gene

SOURCE GeneReport for Unigene cluster for CDKN3 Gene Hs.84113

genes like me logo Genes that share expression patterns with CDKN3: view

Primer Products

No data available for Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for CDKN3 Gene

Orthologs for CDKN3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CDKN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Canis familiaris)
Mammalia CDKN3 35
  • 91.67 (n)
  • 91.98 (a)
CDKN3 36
  • 92 (a)
(Mus musculus)
Mammalia Cdkn3 35
  • 88.47 (n)
  • 89.57 (a)
Cdkn3 16
Cdkn3 36
  • 90 (a)
(Pan troglodytes)
Mammalia CDKN3 35
  • 99.53 (n)
  • 98.58 (a)
CDKN3 36
  • 99 (a)
(Bos Taurus)
Mammalia CDKN3 36
  • 92 (a)
(Monodelphis domestica)
Mammalia CDKN3 36
  • 83 (a)
(Ornithorhynchus anatinus)
Mammalia CDKN3 36
  • 64 (a)
(Gallus gallus)
Aves CDKN3 35
  • 69.42 (n)
  • 66.99 (a)
CDKN3 36
  • 67 (a)
(Anolis carolinensis)
Reptilia CDKN3 36
  • 66 (a)
(Danio rerio)
Actinopterygii cdkn3 35
  • 64.08 (n)
  • 59.71 (a)
Dr.24317 35
cdkn3 36
  • 59 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.4052 35
Species with no ortholog for CDKN3:
  • 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)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CDKN3 Gene

Gene Tree for CDKN3 (if available)
Gene Tree for CDKN3 (if available)

Paralogs for CDKN3 Gene

No data available for Paralogs for CDKN3 Gene

Variants for CDKN3 Gene

Sequence variations from dbSNP and Humsavar for CDKN3 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
VAR_013842 Hepatocellular carcinoma (HCC)
VAR_013843 Hepatocellular carcinoma (HCC)
VAR_013844 Hepatocellular carcinoma (HCC)
VAR_013845 Hepatocellular carcinoma (HCC)
VAR_013846 Hepatocellular carcinoma (HCC)

Structural Variations from Database of Genomic Variants (DGV) for CDKN3 Gene

Variant ID Type Subtype PubMed ID
nsv832801 CNV Gain 17160897

Variation tolerance for CDKN3 Gene

Residual Variation Intolerance Score: 69.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.66; 14.00% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDKN3 Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDKN3 Gene

Disorders for CDKN3 Gene

MalaCards: The human disease database

(13) MalaCards diseases for CDKN3 Gene - From: Swiss-Prot, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
hepatocellular carcinoma
  • hepatocellular carcinoma, somatic
bannayan-riley-ruvalcaba syndrome
  • bannayan-zonana syndrome
lowe syndrome
  • oculocerebrorenal syndrome
star syndrome
  • syndactyly, telecanthus, anogenital and renal malformations
cowden disease
  • dysplastic gangliocytoma of cerebellum
- elite association - COSMIC cancer census association via MalaCards
Search CDKN3 in MalaCards View complete list of genes associated with diseases


  • Hepatocellular carcinoma (HCC) [MIM:114550]: A primary malignant neoplasm of epithelial liver cells. The major risk factors for HCC are chronic hepatitis B virus (HBV) infection, chronic hepatitis C virus (HCV) infection, prolonged dietary aflatoxin exposure, alcoholic cirrhosis, and cirrhosis due to other causes. {ECO:0000269 PubMed:10987270}. Note=The gene represented in this entry may be involved in disease pathogenesis.

Relevant External Links for CDKN3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CDKN3: view

No data available for Genatlas for CDKN3 Gene

Publications for CDKN3 Gene

  1. Cdi1, a human G1 and S phase protein phosphatase that associates with Cdk2. (PMID: 8242750) Gyuris J. … Brent R. (Cell 1993) 2 3 4 23 67
  2. Chromosomal mapping of the genes for the human cell cycle proteins cyclin C (CCNC), cyclin E (CCNE), p21 (CDKN1) and KAP (CDKN3). (PMID: 7698009) Demetrick D.J. … Beach D.H. (Cytogenet. Cell Genet. 1995) 2 3 23
  3. Binding of HTm4 to cyclin-dependent kinase (Cdk)-associated phosphatase (KAP).Cdk2.cyclin A complex enhances the phosphatase activity of KAP, dissociates cyclin A, and facilitates KAP dephosphorylation of Cdk2. (PMID: 15671017) Chinami M. … Adra C.N. (J. Biol. Chem. 2005) 3 23
  4. Choline availability modulates human neuroblastoma cell proliferation and alters the methylation of the promoter region of the cyclin-dependent kinase inhibitor 3 gene. (PMID: 15147518) Niculescu M.D. … Zeisel S.H. (J. Neurochem. 2004) 3 23
  5. Abolishment of the interaction between cyclin-dependent kinase 2 and Cdk-associated protein phosphatase by a truncated KAP mutant. (PMID: 12745075) Yeh C.-T. … Chao M.-L. (Biochem. Biophys. Res. Commun. 2003) 3 23

Products for CDKN3 Gene

Sources for CDKN3 Gene