2C5V

DIFFERENTIAL BINDING OF INHIBITORS TO ACTIVE AND INACTIVE CDK2 PROVIDES INSIGHTS FOR DRUG DESIGN

Structural Biology Knowledgebase: 2C5V SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.171

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2C5V

Classification: CELL CYCLE

Total Structure Weight: 129919.61

Macromolecule Entities
Molecule Chains Length Organism Details
CELL DIVISION PROTEIN KINASE 2 A, C 298 Homo sapiens EC#: 2.7.11.22 IUBMB
Gene Name(s): CDK2 Gene View CDKN2
CYCLIN A2 B, D 259 Homo sapiens Gene Name(s): CCNA2 Gene View CCN1 CCNA
ALA-ALA-ABA-ARG-SER-LEU-ILE-PFF-NH2 F, H 9 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CK4
Query on CK4

A, C 4-(2,4-DIMETHYL-1,3-THIAZOL-5-YL)-N-[4-(TRIFLUOROMETHYL)PHENYL]PYRIMIDIN- 2-AMINE
4-(2,4-DIMETHYL-THIAZOL-5-YL)-PYRIMIDIN-2- YL]-(4-TRIFLUOROMETHYL-PHENYL)-AMINE (Synonym)
C16 H13 F3 N4 S
MEZFDQUDLQCVNX-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CK4 IC50: 290 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind
Modified Residues 3 Unique
ID Chains Type Formula 2D Diagram Parent
ABA
Query on ABA
F, H L-PEPTIDE LINKING C4 H9 N O2 ALA
PFF
Query on PFF
F, H L-PEPTIDE LINKING C9 H10 F N O2 PHE
NH2
Query on NH2
F, H NON-POLYMER H2 N --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.171
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 74.50 α = 90.00
b = 114.55 β = 90.00
c = 156.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-11-02
  • Released Date: 2006-03-01
  • Deposition author(s): Kontopidis, G., Mcinnes, C., Pandalaneni, S.R., Mcnae, I., Gibson, D., Mezna, M., Thomas, M., Wood, G., Wang, S., Walkinshaw, M.D., Fischer, P.M.
  • Previous versions: 1OKU

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4