2VV9

CDK2 IN COMPLEX WITH AN IMIDAZOLE PIPERAZINE

Structural Biology Knowledgebase: 2VV9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.189

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2VV9

Classification: TRANSFERASE

Total Structure Weight: 34438.38

Macromolecule Entities
Molecule Chains Length Organism Details
CELL DIVISION PROTEIN KINASE 2 A 299 Homo sapiens EC#: 2.7.11.22 IUBMB
Details: ACETYLATION AT N-TERMINAL METHIONINE
Gene Name(s): CDK2 Gene View CDKN2

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
IM9
Query on IM9

A 2-{4-[4-({4-[2-methyl-1-(1-methylethyl)-1H- imidazol-5-yl]pyrimidin-2-yl}amino)phenyl]piperazin- 1-yl}-2-oxoethanol
C23 H29 N7 O2
PVTKDXZNSUHUMO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
IM9 IC50: 17 nM (100) BindingDB

IC50: 17 nM  BindingMOAD
IC50: 17 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
A NON-POLYMER C2 H4 O --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.189
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 53.25 α = 90.00
b = 71.15 β = 90.00
c = 71.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-06-04
  • Released Date: 2008-08-05
  • Deposition author(s): Acton, D.G., Anderson, M., Andrews, D.M., Barker, A.J., Brassington, C.A., Finlay, M.R., Fisher, E., Gerhardt, S., Graham, M.A., Green, C.P., Heaton, D.W., Loddick, S.A., Morgentin, R., Read, J., Roberts, A., Stanway, J., Tucker, J.A., Weir, H.M.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4