|Entry||Database: PDB / ID: 1fin|
|Title||CYCLIN A-CYCLIN-DEPENDENT KINASE 2 COMPLEX|
|Keywords||COMPLEX (TRANSFERASE/CYCLIN) / COMPLEX (TRANSFERASE-CYCLIN) / CYCLIN / CDK / PHOSPHORYLATION / COMPLEX (TRANSFERASE-CYCLIN) complex|
|Function / homology||Transcription of E2F targets under negative control by p107 (RBL1) and p130 (RBL2) in complex with HDAC1 / Phosphorylation of proteins involved in the G2/M transition by Cyclin A:Cdc2 complexes / Protein kinase-like domain superfamily / Senescence-Associated Secretory Phenotype (SASP) / SCF(Skp2)-mediated degradation of p27/p21 / Regulation of APC/C activators between G1/S and early anaphase / Activation of ATR in response to replication stress / Cyclin-like / Protein kinase, ATP binding site / Cdc20:Phospho-APC/C mediated degradation of Cyclin A ...Transcription of E2F targets under negative control by p107 (RBL1) and p130 (RBL2) in complex with HDAC1 / Phosphorylation of proteins involved in the G2/M transition by Cyclin A:Cdc2 complexes / Protein kinase-like domain superfamily / Senescence-Associated Secretory Phenotype (SASP) / SCF(Skp2)-mediated degradation of p27/p21 / Regulation of APC/C activators between G1/S and early anaphase / Activation of ATR in response to replication stress / Cyclin-like / Protein kinase, ATP binding site / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / G0 and Early G1 / Ub-specific processing proteases / Cyclin-A, N-terminal / Protein kinase domain profile. / Cyclin-like superfamily / Cyclin / Cyclins signature. / Serine/Threonine protein kinases active-site signature. / Protein kinases ATP-binding region signature. / N-terminal region of cyclin_N / Cyclin, C-terminal domain / DNA Damage/Telomere Stress Induced Senescence / Processing of DNA double-strand break ends / Protein kinase domain / Cyclin, C-terminal domain / Factors involved in megakaryocyte development and platelet production / Meiotic recombination / PTK6 Regulates Cell Cycle / Cyclin A:Cdk2-associated events at S phase entry / p53-Dependent G1 DNA Damage Response / Protein kinase domain / Cyclin A/B1/B2 associated events during G2/M transition / Cyclin E associated events during G1/S transition / Cyclin, N-terminal / TP53 Regulates Transcription of Genes Involved in G1 Cell Cycle Arrest / Serine/threonine-protein kinase, active site / Phosphorylation of proteins involved in G1/S transition by active Cyclin E:Cdk2 complexes / CDK-mediated phosphorylation and removal of Cdc6 / Activation of the pre-replicative complex / Orc1 removal from chromatin / G2 Phase / Regulation of TP53 Degradation / Regulation of TP53 Activity through Phosphorylation / Cyclin, N-terminal domain / cellular response to luteinizing hormone stimulus / cellular response to cocaine / cell cycle G1/S phase transition / male pronucleus / female pronucleus / cellular response to insulin-like growth factor stimulus / cellular response to leptin stimulus / cochlea development / response to glucagon / cyclin-dependent protein serine/threonine kinase regulator activity / cellular response to platelet-derived growth factor stimulus / regulation of DNA replication / regulation of cyclin-dependent protein serine/threonine kinase activity / regulation of mitotic nuclear division / cyclin E1-CDK2 complex / cyclin E2-CDK2 complex / cyclin A1-CDK2 complex / cyclin A2-CDK2 complex / positive regulation of DNA-dependent DNA replication initiation / Y chromosome / cyclin-dependent protein kinase activity / X chromosome / histone phosphorylation / centrosome duplication / centriole replication / cyclin-dependent protein kinase holoenzyme complex / cyclin-dependent kinase / cyclin-dependent protein serine/threonine kinase activity / Cajal body / condensed chromosome / cellular response to nitric oxide / cyclin binding / mitotic G1 DNA damage checkpoint / positive regulation of cell cycle / regulation of gene silencing / potassium ion transport / meiotic cell cycle / cellular response to estradiol stimulus / chromosome, telomeric region / animal organ regeneration / G1/S transition of mitotic cell cycle / positive regulation of fibroblast proliferation / anaphase-promoting complex-dependent catabolic process / DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest / Ras protein signal transduction / cellular response to hypoxia / regulation of G2/M transition of mitotic cell cycle / mitotic cell cycle / transcription factor complex / G2/M transition of mitotic cell cycle / regulation of signal transduction by p53 class mediator / DNA replication / endosome / peptidyl-serine phosphorylation / protein deubiquitination / centrosome|
Function and homology information
|Specimen source||Homo sapiens (human)|
|Method||X-RAY DIFFRACTION / SYNCHROTRON / 2.3 Å resolution|
|Authors||Jeffrey, P.D. / Russo, A.A. / Pavletich, N.P.|
|Citation||Journal: Nature / Year: 1995|
Title: Mechanism of CDK activation revealed by the structure of a cyclinA-CDK2 complex.
Authors: Jeffrey, P.D. / Russo, A.A. / Polyak, K. / Gibbs, E. / Hurwitz, J. / Massague, J. / Pavletich, N.P.
SummaryFull reportAbout validation report
|Date||Deposition: Jul 14, 1996 / Release: Jan 27, 1997|
|Structure viewer||Molecule: |
Downloads & links
A: CYCLIN-DEPENDENT KINASE 2
B: CYCLIN A
C: CYCLIN-DEPENDENT KINASE 2
D: CYCLIN A
A: CYCLIN-DEPENDENT KINASE 2
B: CYCLIN A
C: CYCLIN-DEPENDENT KINASE 2
D: CYCLIN A
Mass: 33976.488 Da / Num. of mol.: 2 / Source: (gene. exp.) Homo sapiens (human) / Genus: Homo / Cell line: SF9 / Plasmid name: PET3A / Genus (production host): Spodoptera / Production host: Spodoptera frugiperda (fall armyworm) / Strain (production host): SF9
References: UniProt: P24941, Transferases, Transferring phosphorus-containing groups, Phosphotransferases with an alcohol group as acceptor
Mass: 29867.512 Da / Num. of mol.: 2 / Fragment: RESIDUES 173 - 432 / Source: (gene. exp.) Homo sapiens (human) / Genus: Homo
Description: THE FRAGMENT USED IN THE CRYSTALLIZATION WAS PRODUCED BY THE CLEAVAGE OF FULL-LENGTH CYCLIN A BY SUBTILISIN
Cell line: SF9 / Plasmid name: PET3A / Genus (production host): Escherichia / Production host: Escherichia coli (E. coli) / Strain (production host): SF9 / References: UniProt: P20248
Mass: 507.181 Da / Num. of mol.: 2 / Formula: C10H16N5O13P3 / Adenosine triphosphate / Comment: ATP (energy-carrying molecule) *YM
|#4: Water|| ChemComp-HOH / |
|Experiment||Method: X-RAY DIFFRACTION|
|Crystal||Density Matthews: 4.16 / Density percent sol: 7 %|
*PLUSTemp: 4 ℃ / pH: 7 / Method: vapor diffusion, hanging drop
|components of the solutions|
|Source||Source: SYNCHROTRON / Type: CHESS BEAMLINE A1 / Synchrotron site: CHESS / Beamline: A1 / Wavelength: 0.92|
|Detector||Detector: CCD / Collection date: Feb 10, 1995|
|Radiation||Monochromatic or laue m l: M / Scattering type: x-ray|
|Radiation wavelength||Wavelength: 0.92 / Relative weight: 1|
|Reflection||Number obs: 86466 / Rmerge I obs: 0.061 / Redundancy: 7.8 % / Percent possible obs: 90.2|
*PLUSD resolution high: 2.3 / Number measured all: 677413
|Refine||Sigma F: 2|
|Least-squares process||R factor R work: 0.208 / Highest resolution: 2.3 / Lowest resolution: 6 / Number reflection obs: 70208 / Percent reflection obs: 90.2|
|Refine hist #LAST||Highest resolution: 2.3 / Lowest resolution: 6|
|Number of atoms included #LAST||Protein: 8998 / Nucleic acid: 0 / Ligand: 62 / Solvent: 416 / Total: 9476|
|Refine LS restraints|
*PLUSName: TNT / Classification: refinement
*PLUSR factor obs: 0.208
-Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)
EMDB accession codes are about to change! (news from PDBe EMDB page)
- The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force. (see PDBe EMDB page)
- The EM Navigator/Yorodumi systems omit the EMD- prefix.
Related info.: Q: What is "EMD"? / ID/Accession-code notation in Yorodumi/EM Navigator
-Jul 12, 2017. Major update of PDB
Major update of PDB
- wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary. This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated. See below links for details.
- In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software). Now, EM Navigator and Yorodumi are based on the updated data.
+Jun 16, 2017. Omokage search with filter
Omokage search with filter
- Result of Omokage search can be filtered by keywords and the database types
Related info.: Omokage search
+Sep 15, 2016. EM Navigator & Yorodumi renewed
EM Navigator & Yorodumi renewed
- New versions of EM Navigator and Yorodumi started
Related info.: Changes in new EM Navigator and Yorodumi
+Aug 31, 2016. New EM Navigator & Yorodumi
New EM Navigator & Yorodumi
- In 15th Sep 2016, the development versions of EM Navigator and Yorodumi will replace the official versions.
- Current version will continue as 'legacy version' for some time.
Related info.: Changes in new EM Navigator and Yorodumi / EM Navigator / Yorodumi
Thousand views of thousand structures
- Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
- This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
Related info.: EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi