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CDK5R2 cyclin dependent kinase 5 regulatory subunit 2 [ Homo sapiens (human) ]

Gene ID: 8941, updated on 2-Nov-2024

Summary

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Official Symbol
CDK5R2provided by HGNC
Official Full Name
cyclin dependent kinase 5 regulatory subunit 2provided by HGNC
Primary source
HGNC:HGNC:1776
See related
Ensembl:ENSG00000171450 MIM:603764; AllianceGenome:HGNC:1776
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
P39; NCK5AI; p39nck5ai
Summary
The protein encoded by this gene is a neuron-specific activator of CDK5 kinase. It associates with CDK5 to form an active kinase. This protein and neuron-specific CDK5 activator CDK5R1/p39NCK5A both share limited similarity to cyclins, and thus may define a distinct family of cyclin-dependent kinase activating proteins. [provided by RefSeq, Jul 2008]
Orthologs
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Genomic context

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See CDK5R2 in Genome Data Viewer
Location:
2q35
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (218959666..218962155)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (219448040..219450529)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (219824388..219826877)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1494 Neighboring gene uncharacterized LOC124907984 Neighboring gene keratin 8 pseudogene 30 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12338 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:219828036-219829235 Neighboring gene long intergenic non-protein coding RNA 608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17137 Neighboring gene FEV transcription factor, ETS family member

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The Cdk5 activator P39 specifically links muskelin to myosin II and regulates stress fiber formation and actin organization in lens. Tripathi BK, et al. Exp Cell Res, 2015 Jan 1. PMID 25128817, Free PMC Article
  2. Assignment of CDK5R2 coding for the cyclin-dependent kinase 5, regulatory subunit 2 (NCK5AI protein) to human chromosome band 2q35 by fluorescent in situ hybridization. Muravenko OV, et al. Cytogenet Cell Genet, 2000. PMID 10965112
  3. Decreased expression of p39 is associated with a poor prognosis in human hepatocellular carcinoma. Lu JW, et al. Med Oncol, 2011 Dec. PMID 20936377
  4. S-Nitrosylation of p39 promotes its degradation and contributes to synaptic dysfunction induced by β-amyloid peptide. Cheng A, et al. Commun Biol, 2024 Sep 10. PMID 39256547, Free PMC Article
  5. An isoform of the neuronal cyclin-dependent kinase 5 (Cdk5) activator. Tang D, et al. J Biol Chem, 1995 Nov 10. PMID 7592934

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. S-Nitrosylation of p39 promotes its degradation and contributes to synaptic dysfunction induced by beta-amyloid peptide.
    Title: S-Nitrosylation of p39 promotes its degradation and contributes to synaptic dysfunction induced by β-amyloid peptide.
  2. a biomarker consisting of the phosphorylation of the retinoblastoma protein (Rb) on serine 249 combined with elevated p39 expression. This biomarker correlates with epithelial-to-mesenchymal transition traits in non-small cell lung carcinoma (NSCLC) cells.
    Title: Hyper-phosphorylation of Rb S249 together with CDK5R2/p39 overexpression are associated with impaired cell adhesion and epithelial-to-mesenchymal transition: Implications as a potential lung cancer grading and staging biomarker.
  3. p39 is essential for recruiting scaffolding protein muskelin to stress fibers.
    Title: The Cdk5 activator P39 specifically links muskelin to myosin II and regulates stress fiber formation and actin organization in lens.
  4. Structural basis for the different stability and activity between the Cdk5 complexes with p35 and p39 activators.
    Title: Structural basis for the different stability and activity between the Cdk5 complexes with p35 and p39 activators.
  5. Hepatocellular carcinoma patients with lower p39 expression had poorer overall survival rate than that with high expression.
    Title: Decreased expression of p39 is associated with a poor prognosis in human hepatocellular carcinoma.
  6. both proteasomal degradation and calpain cleavage of p35 and p39 are stimulated by membrane association, which is in turn mediated via myristoylation of their p10 regions.
    Title: Membrane association facilitates degradation and cleavage of the cyclin-dependent kinase 5 activators p35 and p39.
  7. Our data suggest that neurotoxic insults lead to calpain-mediated conversion of p39 to p29, which might contribute to deregulation of Cdk5
    Title: Calpain-mediated cleavage of the cyclin-dependent kinase-5 activator p39 to p29.
  8. role of the CDK5 molecular complex in the genetic etiology of early-onset Alzheimer disease; a yet unknown functional variant in CDK5 or in a nearby gene might lead to increased susceptibility for early-onset Alzheimer disease
    Title: Association of cyclin-dependent kinase 5 and neuronal activators p35 and p39 complex in early-onset Alzheimer's disease.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of cyclin-dependent kinase 5, regulatory subunit 2, p39 (CDK5R2) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables actin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cyclin-dependent protein serine/threonine kinase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cyclin-dependent protein serine/threonine kinase activator activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cyclin-dependent protein serine/threonine kinase activator activity TAS
Traceable Author Statement
more info
 PubMed 
enables lipid binding IEA
Inferred from Electronic Annotation
more info
  
enables protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cerebellum development IEA
Inferred from Electronic Annotation
more info
  
involved_in hippocampus development IEA
Inferred from Electronic Annotation
more info
  
involved_in layer formation in cerebral cortex IEA
Inferred from Electronic Annotation
more info
  
involved_in neuron migration IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of calcium ion-dependent exocytosis IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of cyclin-dependent protein serine/threonine kinase activity TAS
Traceable Author Statement
more info
 PubMed 
involved_in superior olivary nucleus maturation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of cyclin-dependent protein kinase holoenzyme complex ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in growth cone IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in growth cone ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in neuron projection ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in presynapse IEA
Inferred from Electronic Annotation
more info
  
part_of protein kinase 5 complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
cyclin-dependent kinase 5 activator 2
Names
CDK5 activator 2
p39I

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.

mRNA and Protein(s)

  1. NM_003936.5 → NP_003927.1  cyclin-dependent kinase 5 activator 2

    See identical proteins and their annotated locations for NP_003927.1

    Status: REVIEWED

    Source sequence(s)
    AC097468
    Consensus CDS
    CCDS2427.1
    UniProtKB/Swiss-Prot
    Q13319, Q4ZFW6
    UniProtKB/TrEMBL
    Q5XKD4
    Related
    ENSP00000304250.4, ENST00000302625.6
    Conserved Domains (1) summary
    pfam03261
    Location:40 → 326
    CDK5_activator; Cyclin-dependent kinase 5 activator protein

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    218959666..218962155
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    219448040..219450529
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q13319.1 GenPept UniProtKB/Swiss-Prot:Q13319

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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