CDK2 cyclin dependent kinase 2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: CDK2provided by HGNC
Official Full Name: cyclin dependent kinase 2provided by HGNC
Primary source: HGNC:HGNC:1771
See related: Ensembl:ENSG00000123374 MIM:116953; AllianceGenome:HGNC:1771
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: CDKN2; p33(CDK2)
Summary: This gene encodes a member of a family of serine/threonine protein kinases that participate in cell cycle regulation. The encoded protein is the catalytic subunit of the cyclin-dependent protein kinase complex, which regulates progression through the cell cycle. Activity of this protein is especially critical during the G1 to S phase transition. This protein associates with and regulated by other subunits of the complex including cyclin A or E, CDK inhibitor p21Cip1 (CDKN1A), and p27Kip1 (CDKN1B). Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]
Expression: Ubiquitous expression in placenta (RPKM 29.3), bone marrow (RPKM 14.9) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 12q13.2

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	12	NC_000012.12 (55966830..55972789)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	12	NC_060936.1 (55933893..55939852)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	12	NC_000012.11 (56360614..56366573)

Chromosome 12 - NC_000012.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

NaV1.1 contributes to the cell cycle of human mesenchymal stem cells by regulating AKT and CDK2.
Title: NaV1.1 contributes to the cell cycle of human mesenchymal stem cells by regulating AKT and CDK2.
CDK2-activated TRIM32 phosphorylation and nuclear translocation promotes radioresistance in triple-negative breast cancer.
Title: CDK2-activated TRIM32 phosphorylation and nuclear translocation promotes radioresistance in triple-negative breast cancer.
Hsa_circ_0005320 affects cell proliferation and the cell cycle via the IGF2BP3/CDK2 axis in bladder cancer.
Title: Hsa_circ_0005320 affects cell proliferation and the cell cycle via the IGF2BP3/CDK2 axis in bladder cancer.
Exploring the mechanism of C473D mutation on CDC25B causing weak binding affinity with CDK2/CyclinA by molecular dynamics study.
Title: Exploring the mechanism of C473D mutation on CDC25B causing weak binding affinity with CDK2/CyclinA by molecular dynamics study.
KDM4C-mediated senescence defense is a targetable vulnerability in gastric cancer harboring TP53 mutations.
Title: KDM4C-mediated senescence defense is a targetable vulnerability in gastric cancer harboring TP53 mutations.
N6-methyladenosine reader YTHDF2 promotes multiple myeloma cell proliferation through EGR1/p21[cip1/waf1]/CDK2-Cyclin E1 axis-mediated cell cycle transition.
Title: N6-methyladenosine reader YTHDF2 promotes multiple myeloma cell proliferation through EGR1/p21(cip1/waf1)/CDK2-Cyclin E1 axis-mediated cell cycle transition.
SARS-CoV-2 hijacks cellular kinase CDK2 to promote viral RNA synthesis.
Title: SARS-CoV-2 hijacks cellular kinase CDK2 to promote viral RNA synthesis.
Role of Genetic Variations in CDK2, CCNE1 and p27(KIP1) in Prostate Cancer.
Title: Role of Genetic Variations in CDK2, CCNE1 and p27(KIP1) in Prostate Cancer.
Overexpression of IncRNA TPT1-AS1 Suppresses Hepatocellular Carcinoma Cell Proliferation by Downregulating CDK2.
Title: Overexpression of IncRNA TPT1-AS1 Suppresses Hepatocellular Carcinoma Cell Proliferation by Downregulating CDK2.
A comprehensive bioinformatic analysis of cyclin-dependent kinase 2 (CDK2) in glioma.
Title: A comprehensive bioinformatic analysis of cyclin-dependent kinase 2 (CDK2) in glioma.

Submit: New GeneRIF Correction See all GeneRIFs (362)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A novel susceptibility locus for type 1 diabetes on Chr12q13 identified by a genome-wide association study. EBI GWAS Catalog EBI GWAS CatalogPubMed
Association analyses identify three susceptibility Loci for vitiligo in the Chinese Han population. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genetics of rheumatoid arthritis contributes to biology and drug discovery. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study identifies three new susceptibility loci for adult asthma in the Japanese population. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	CDK2 regulates HIV-1 Tat-mediated transcription by phosphorylation of CDK9 at position Ser90 and decreases 7SK RNA levels	PubMed
	tat	Iron chelators 311 and ICL670 decrease cellular activity of CDK2 and reduce HIV-1 Tat phosphorylation by CDK2	PubMed
	tat	When expressed in astrocytes, neurons, and non-glial 293T cells, HIV-1 Tat interacts with a number of cell cycle-related proteins including cyclin A, cyclin B, cyclin D3, Cdk2, Cdk4, Cdk1/Cdc2, cdc6, p27, p53, p63, hdlg, and PCNA	PubMed
	tat	Amino acid residues serine 16 and 46 of HIV-1 Tat are phosphorylated by CDK2; mutation of these two residues reduces HIV-1 transcription in cells	PubMed
	tat	HIV-1 Tat 41/44 peptide TAALS from the core domain of Tat inhibits Tat-mediated HIV-1 gene expression and replication by binding the Cdk2/Cyclin E complex and inhibiting the phosphorylation of serine 5 of RNAPII	PubMed
	tat	Cdk2 phosphorylates HIV-1 Tat	PubMed
	tat	Tat-mediated phosphorylation of RNA Polymerase C-terminal domain involves dynamic interactions of Cdk2 with Tat amino acids 15-24 and 36-49 and requires cysteine 22 in the activation domain of Tat and amino acids 42-72 of Tat	PubMed
	tat	Cdk2 activity is enhanced by HIV-1 Tat expression in Jurkat T cells and is associated with Tat-induced apoptosis	PubMed
	tat	HIV-1 Tat induces Cyclin E-associated cdk activity in lymphocytes, indicating Tat drives cells to the late G1 phase of the cell cycle	PubMed
	tat	HIV-1 Tat induces a G1 arrest in cells of glial origin, leading to a downregulation of cyclin E-Cdk2 kinase activity and phosphorylation of Rb	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC85407P1 (e-PCR)
- UniSTS:273472

RH70858 (e-PCR)
- UniSTS:79183

SHGC-12640 (e-PCR)
- UniSTS:35663

csnpcdk2-pcr1-1 (e-PCR)
- UniSTS:243029

csnpcdk2-pcr5-1 (e-PCR)
- UniSTS:243030

csnpcdk2-pcr7-1 (e-PCR)
- UniSTS:243031

CDK2_529 (e-PCR)
- UniSTS:277091

MARC_16937-16938:1017082126:1 (e-PCR)
- UniSTS:268157

RH118926 (e-PCR)
- UniSTS:138927

RH45696 (e-PCR)
- UniSTS:15102

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables cyclin binding	IBA Inferred from Biological aspect of Ancestor more info
enables cyclin binding	IDA Inferred from Direct Assay more info	PubMed
enables cyclin binding	IPI Inferred from Physical Interaction more info	PubMed
enables cyclin-dependent protein kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables cyclin-dependent protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cyclin-dependent protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables cyclin-dependent protein serine/threonine kinase activity	TAS Traceable Author Statement more info
contributes_to histone kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables magnesium ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine kinase activity	IGI Inferred from Genetic Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA replication	TAS Traceable Author Statement more info	PubMed
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in G1/S transition of mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in G1/S transition of mitotic cell cycle	NAS Non-traceable Author Statement more info	PubMed
involved_in G2/M transition of mitotic cell cycle	NAS Non-traceable Author Statement more info	PubMed
involved_in Ras protein signal transduction	IEP Inferred from Expression Pattern more info	PubMed
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in cellular response to nitric oxide	TAS Traceable Author Statement more info	PubMed
involved_in cellular senescence	TAS Traceable Author Statement more info
involved_in centriole replication	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in centrosome duplication	TAS Traceable Author Statement more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in meiotic cell cycle	TAS Traceable Author Statement more info	PubMed
involved_in mitotic G1 DNA damage checkpoint signaling	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-serine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of DNA replication	TAS Traceable Author Statement more info
involved_in positive regulation of DNA-templated DNA replication initiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of heterochromatin formation	IDA Inferred from Direct Assay more info	PubMed
involved_in post-translational protein modification	IDA Inferred from Direct Assay more info	PubMed
involved_in potassium ion transport	IEA Inferred from Electronic Annotation more info
involved_in protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of G2/M transition of mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of anaphase-promoting complex-dependent catabolic process	TAS Traceable Author Statement more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of mitotic cell cycle	TAS Traceable Author Statement more info
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in telomere maintenance in response to DNA damage	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in Cajal body	IDA Inferred from Direct Assay more info	PubMed
located_in X chromosome	IEA Inferred from Electronic Annotation more info
located_in Y chromosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	IDA Inferred from Direct Assay more info
located_in centrosome	TAS Traceable Author Statement more info	PubMed
located_in chromosome, telomeric region	IEA Inferred from Electronic Annotation more info
located_in condensed chromosome	IEA Inferred from Electronic Annotation more info
part_of cyclin A1-CDK2 complex	NAS Non-traceable Author Statement more info	PubMed
part_of cyclin A2-CDK2 complex	IDA Inferred from Direct Assay more info	PubMed
part_of cyclin A2-CDK2 complex	IPI Inferred from Physical Interaction more info	PubMed
part_of cyclin E1-CDK2 complex	IPI Inferred from Physical Interaction more info	PubMed
part_of cyclin E2-CDK2 complex	IPI Inferred from Physical Interaction more info	PubMed
part_of cyclin-dependent protein kinase holoenzyme complex	IBA Inferred from Biological aspect of Ancestor more info
part_of cyclin-dependent protein kinase holoenzyme complex	IDA Inferred from Direct Assay more info	PubMed
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	TAS Traceable Author Statement more info
located_in endosome	IDA Inferred from Direct Assay more info	PubMed
located_in male germ cell nucleus	IEA Inferred from Electronic Annotation more info
located_in nuclear envelope	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	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
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: cyclin-dependent kinase 2

Names: cdc2-related protein kinase; cell division protein kinase 2; p33 protein kinase

NP_001277159.1

EC 2.7.11.22

NP_001789.2

EC 2.7.11.22

NP_439892.2

EC 2.7.11.22

XP_011536034.1

EC 2.7.11.22

XP_054226706.1

EC 2.7.11.22

NCBI Reference Sequences (RefSeq)

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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.

Genomic

NG_034014.1 RefSeqGene

Range

5062..11021

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001290230.2 → NP_001277159.1 cyclin-dependent kinase 2 isoform 3

See identical proteins and their annotated locations for NP_001277159.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks two alternate in-frame exons, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.

Source sequence(s)

AA789250, AK293246, BC003065, DA814453

Consensus CDS

CCDS76567.1

UniProtKB/TrEMBL

B4DDL9, E7ESI2

Related

ENSP00000393605.2, ENST00000440311.6

Conserved Domains (1) summary

cl21453
Location:3 → 226

PKc_like; Protein Kinases, catalytic domain
NM_001798.5 → NP_001789.2 cyclin-dependent kinase 2 isoform 1

See identical proteins and their annotated locations for NP_001789.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AA789250, AK291941, BC003065, DA814453

Consensus CDS

CCDS8898.1

UniProtKB/Swiss-Prot

A8K7C6, O75100, P24941

Related

ENSP00000266970.4, ENST00000266970.9

Conserved Domains (1) summary

cd07860
Location:3 → 286

STKc_CDK2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase 2 and 3
NM_052827.4 → NP_439892.2 cyclin-dependent kinase 2 isoform 2

See identical proteins and their annotated locations for NP_439892.2

Status: REVIEWED

Description

Transcript Variant: This variant (2, also known as CDK2deltaT) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2, also known as d-HSCDK2) is shorter than isoform 1.

Source sequence(s)

AA789250, AB012305, BC003065, DA814453

Consensus CDS

CCDS8899.1

UniProtKB/TrEMBL

B4DDL9

Related

ENSP00000243067.4, ENST00000354056.4

Conserved Domains (1) summary

cl21453
Location:3 → 252

PKc_like; Protein Kinases, catalytic domain