Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 34.55 kDa 
• Atom Count: 2550 
• Residue Count: 283 
• Unique protein chains: 1

4FKV

Crystal structure of the cdk2 in complex with oxindole inhibitor

• DOI: 10.2210/pdb4FKV/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2012-06-13 Released: 2013-05-08 
• Deposition Author(s): Kang, Y.N., Stuckey, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.203 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 

Literature

Crystal structure of the cdk2 in complex with oxindole inhibitor

Kang, Y.N., Stuckey, J.A.

To be published.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyclin-dependent kinase 2	A	299	Homo sapiens	Mutation(s): 1  Gene Names: CDK2, CDKN2 EC: 2.7.11.22
Find proteins for P24941 (Homo sapiens) Explore P24941  Go to UniProtKB:  P24941
NIH Common Fund Data Resources
PHAROS:  P24941 GTEx:  ENSG00000123374

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
61K	A	(3Z)-N-[2-(1H-imidazol-4-yl)ethyl]-2-oxo-3-[2-(4-sulfamoylphenyl)hydrazinylidene]-2,3-dihydro-1H-indole-5-carboxamide C20 H19 N7 O4 S CQSUILWVYSOEJC-UHFFFAOYSA-N
GOL	A	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
61K	ΔG:  39   kJ/mol  BindingDB
61K	-TΔS:  6.289999961853027   kJ/mol  BindingDB
61K	Kd:  82.19999694824219   nM  BindingDB
61K	ΔH:  18   kJ/mol  BindingDB
61K	Kd:  251   nM  BindingDB
61K	ΔH:  44.79999923706055   kJ/mol  BindingDB
61K	ΔG:  40.400001525878906   kJ/mol  BindingDB
61K	-TΔS:  22.350000381469727   kJ/mol  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.203 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.657	α = 90
b = 71.914	β = 90
c = 72.096	γ = 90

Software Package:

Software Name	Purpose
MD2	data collection
PHASER	phasing
BUSTER	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-06-13 
• Released Date: 2013-05-08 
Deposition Author(s): Kang, Y.N., Stuckey, J.A.

Revision History 

• Version 1.0: 2013-05-08
  Type: Initial release
  
• Version 1.1: 2013-05-22
  Changes: Other