Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 23493.02 
• Atom Count: 1612 
• Residue Count: 192 
• Unique protein chains: 1

4DIJ

The Central Valine Concept Provides an Entry in a New Class of Non Peptide Inhibitors of the P53-MDM2 Interaction

• DOI: 10.2210/pdb4DIJ/pdb

• Classification: LIGASE/LIGASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 2012-01-31 Released: 2012-05-02 
• Deposition Author(s): Kallen, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.224 
• R-Value Work: 0.194 

Literature

The central valine concept provides an entry in a new class of non peptide inhibitors of the p53-MDM2 interaction.

Furet, P., Chene, P., De Pover, A., Valat, T.S., Lisztwan, J.H., Kallen, J., Masuya, K.

(2012) Bioorg.Med.Chem.Lett. 22: 3498-3502

• PubMed: 22507962 
• DOI: 10.1016/j.bmcl.2012.03.083


• PubMed Abstract: 
  

Disrupting the interaction between the p53 tumor suppressor and its regulator MDM2 is a promising therapeutic strategy in anticancer drug research. In our search for non peptide inhibitors of this protein-protein interaction, we have devised a ligand design concept exploiting the central position of Val 93 in the p53 binding pocket of MDM2. The design of molecules based on this concept has allowed us to rapidly identify compounds having a 3-imidazolyl indole core structure as the first representatives of a new class of potent inhibitors of the p53-MDM2 interaction.

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Organizational Affiliation: 

Novartis Institutes for BioMedical Research, CH-4002 Basel, Switzerland. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
E3 ubiquitin-protein ligase Mdm2	A, B	96	Homo sapiens	Mutation(s): 1  Gene Names: MDM2 EC: 2.3.2.27
Find proteins for Q00987 (Homo sapiens) Go to Gene View: MDM2 Go to UniProtKB:  Q00987

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
BLF	A, B	6-chloro-3-[1-(4-chlorobenzyl)-4-phenyl-1H-imidazol-5-yl]-N-[2-(morpholin-4-yl)ethyl]-1H-indole-2-carboxamide C31 H29 Cl2 N5 O2 IFORBTVIRBZFON-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
BLF	IC50: 30 nM BINDINGMOAD
BLF	IC50: 30 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.224 
• R-Value Work: 0.194 
• Space Group: P 4₃

Unit Cell:

Length (Å)	Angle (°)
a = 38.234	α = 90.00
b = 38.234	β = 90.00
c = 175.151	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALEPACK	data scaling
RemDAq	data collection
MOLREP	phasing
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-01-31 
• Released Date: 2012-05-02 
• Deposition Author(s): Kallen, J.

Revision History 

• Version 1.0: 2012-05-02
  Type: Initial release
• Version 1.1: 2012-05-23
  Type: Database references
• Version 1.2: 2017-11-15
  Type: Refinement description