ALPHASUITEATLASTM

PDB 6Q4G

CDK2 in complex with FragLite37

X-RAY DIFFRACTION · 0.98 Å

Open in Atlas →Interactive 3D viewing requires a desktop browser.

Protein descriptions

Descriptions refer to the mapped proteins, not necessarily the full deposited construct or assembly.

P24941 · Chains A

Cyclin-dependent kinase 2

Homo sapiens

Serine/threonine-protein kinase involved in the control of the cell cycle; essential for meiosis, but dispensable for mitosis [1–15]. Phosphorylates CABLES1, CTNNB1, CDK2AP2, ERCC6, NBN, USP37, p53/TP53, NPM1, CDK7, RB1, BRCA2, MYC, NPAT, SUV39H1, EZH2 [1, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13, 16, 14]. Triggers duplication of centrosomes and DNA [5].

Acts at the G1-S transition to promote the E2F transcriptional program and the initiation of DNA synthesis, and modulates G2 progression; controls the timing of entry into mitosis/meiosis by controlling the subsequent activation of cyclin B/CDK1 by phosphorylation, and coordinates the activation of cyclin B/CDK1 at the centrosome and in the nucleus [17, 18, 19]. Crucial role in orchestrating a fine balance between cellular proliferation, cell death, and DNA repair in embryonic stem cells (ESCs) [17, 18, 19]. Activated by the CDK-activating kinase (CAK) complex consisting of CDK7, cyclin-H/CCNH and MAT1, which is a master regulator of CDK activity [20].

Activity of CDK2 is maximal during S phase and G2; activated by interaction with cyclin E during the early stages of DNA synthesis to permit G1-S transition, and subsequently activated by cyclin A2 (cyclin A1 in germ cells) during the late stages of DNA replication to drive the transition from S phase to mitosis, the G2 phase [17, 18, 19]. EZH2 phosphorylation promotes H3K27me3 maintenance and epigenetic gene silencing [11]. Cyclin E/CDK2 prevents oxidative stress-mediated Ras-induced senescence by phosphorylating MYC [10].

Involved in G1-S phase DNA damage checkpoint that prevents cells with damaged DNA from initiating mitosis; regulates homologous recombination-dependent repair by phosphorylating BRCA2, this phosphorylation is low in S phase when recombination is active, but increases as cells progress towards mitosis [8, 21, 22]. In response to DNA damage, double-strand break repair by homologous recombination a reduction of CDK2-mediated BRCA2 phosphorylation [8]. Involved in regulation of telomere repair by mediating phosphorylation of NBN [14].

Phosphorylation of RB1 disturbs its interaction with E2F1 [1]. NPM1 phosphorylation by cyclin E/CDK2 promotes its dissociates from unduplicated centrosomes, thus initiating centrosome duplication [5]. Cyclin E/CDK2-mediated phosphorylation of NPAT at G1-S transition and until prophase stimulates the NPAT-mediated activation of histone gene transcription during S phase [3, 4].

Required for vitamin D-mediated growth inhibition by being itself inactivated [23]. Involved in the nitric oxide- (NO) mediated signaling in a nitrosylation/activation-dependent manner [24]. USP37 is activated by phosphorylation and thus triggers G1-S transition [13].

CTNNB1 phosphorylation regulates insulin internalization [12]. Phosphorylates FOXP3 and negatively regulates its transcriptional activity and protein stability (By similarity). Phosphorylates ERCC6 which is essential for its chromatin remodeling activity at DNA double-strand breaks [25].

Acts as a regulator of the phosphatidylinositol 3-kinase/protein kinase B signal transduction by mediating phosphorylation of the C-terminus of protein kinase B (PKB/AKT1 and PKB/AKT2), promoting its activation [26]

UniProt · P24941 · Snapshot 10/11/2026

Supporting publications · 26
  1. PubMed 10499802
  2. PubMed 10884347
  3. PubMed 10995386
  4. PubMed 10995387
  5. PubMed 11051553
  6. PubMed 11113184
  7. PubMed 12944431
  8. PubMed 15800615
  9. PubMed 17495531
  10. PubMed 19966300
  11. PubMed 20935635
  12. PubMed 21262353
  13. PubMed 21596315
  14. PubMed 28216226
  15. PubMed 28666995
  16. PubMed 24728993
  17. PubMed 18372919
  18. PubMed 19238148
  19. PubMed 19561645
  20. PubMed 41100585
  21. PubMed 20195506
  22. PubMed 21319273
  23. PubMed 20147522
  24. PubMed 20079829
  25. PubMed 29203878
  26. PubMed 24670654

Components and protein mappings

Mappings below identify source-linked proteins. They do not establish residue-level annotation coverage or direct binding.

  • Cyclin-dependent kinase 2

    PROTEIN · Chains A

    Homo sapiens

    P24941

  • 2-[3-(2-azanyl-9~{H}-purin-6-yl)phenyl]ethanoic acid

    LIGAND · Chains B

    No UniProt mapping provided

Protein annotations are displayed in the viewer only where residue mappings are verified. Domain annotations do not apply to DNA or RNA.

Biological assemblies

  • Assembly 1

    author and software defined assembly

    Component membership checked · Chains A, B

    Open assembly 1 →

Primary publication

FragLites-Minimal, Halogenated Fragments Displaying Pharmacophore Doublets. An Efficient Approach to Druggability Assessment and Hit Generation.

Paper date: 26/03/2019

Sources and attribution

Snapshot updated 09/11/2026. Source descriptions are attributed below; Atlas combines and displays their annotations.

No provider endorsement is implied. Attribution and reuse terms.