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 and generated by PISA (software)

Biological Assembly Evidence: authors reported there is no experimental evidence

Macromolecule Content

• Total Structure Weight: 11743.96 
• Atom Count: 826 
• Residue Count: 96 
• Unique protein chains: 1

6GGN

In vitro and in vivo characterization of a novel, highly potent p53-MDM2 inhibitor

• DOI: 10.2210/pdb6GGN/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21


• Deposited: 2018-05-03 Released: 2018-09-26 
• Deposition Author(s): Kallen, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.230 
• R-Value Work: 0.221 

Literature

In vitro and in vivo characterization of a novel, highly potent p53-MDM2 inhibitor.

Vaupel, A., Holzer, P., Ferretti, S., Guagnano, V., Kallen, J., Mah, R., Masuya, K., Ruetz, S., Rynn, C., Schlapbach, A., Stachyra, T., Stutz, S., Todorov, M., Jeay, S., Furet, P.

(2018) Bioorg. Med. Chem. Lett. 28: 3404-3408

• PubMed: 30217415 
• DOI: 10.1016/j.bmcl.2018.08.027


• PubMed Abstract: 
  

Small molecule inhibitors of the p53-MDM2 protein complex are under intense investigation in clinical trials as anti-cancer agents, including our first generation inhibitor NVP-CGM097. We recently described the rational design of a novel pyrazolopyrrolidinone core as a new lead structure and now we report on the synthesis and optimization of this to provide a highly potent lead compound. This new compound displayed excellent oral efficacy in our preclinical mechanistic in vivo model and marked a significant milestone towards the identification of our second generation clinical candidate NVP-HDM201.

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Organizational Affiliation: 

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

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
E3 ubiquitin-protein ligase Mdm2	A	96	Homo sapiens	Mutation(s): 0  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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
EYH	A	(4~{S})-4-(4-chloranyl-2-methyl-phenyl)-5-(5-chloranyl-2-methyl-phenyl)-2-(2,4-dimethoxypyrimidin-5-yl)-3-propan-2-yl-4~{H}-pyrrolo[3,4-d]imidazol-6-one C28 H27 Cl2 N5 O3 XBJHBEQDHSREQB-QHCPKHFHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2 Å
• R-Value Free: 0.230 
• R-Value Work: 0.221 
• Space Group: P 6₁ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 56.080	α = 90.00
b = 56.080	β = 90.00
c = 106.698	γ = 120.00

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
XDS	data reduction
REFMAC	refinement
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2018-05-03 
• Released Date: 2018-09-26 
• Deposition Author(s): Kallen, J.

Revision History 

• Version 1.0: 2018-09-26
  Type: Initial release
• Version 1.1: 2018-10-24
  Type: Data collection, Database references