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)

Macromolecule Content

• Total Structure Weight: 13905.84 
• Atom Count: 821 
• Residue Count: 119 
• Unique protein chains: 2

1T4F

Structure of human MDM2 in complex with an optimized p53 peptide

• DOI: 10.2210/pdb1T4F/pdb

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


• Deposited: 2004-04-29 Released: 2005-02-08 
• Deposition Author(s): Grasberger, B.L., Schubert, C., Koblish, H.K., Carver, T.E., Franks, C.F., Zhao, S.Y., Lu, T., LaFrance, L.V., Parks, D.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.231 
• R-Value Work: 0.197 

Literature

Discovery and cocrystal structure of benzodiazepinedione HDM2 antagonists that activate p53 in cells

Grasberger, B.L., Lu, T., Schubert, C., Parks, D.J., Carver, T.E., Koblish, H.K., Cummings, M.D., LaFrance, L.V., Milkiewicz, K.L.

(2005) J.Med.Chem. 48: 909-912

• PubMed: 15715460 
• DOI: 10.1021/jm049137g
• Primary Citation of Related Structures:  
  1T4E


• PubMed Abstract: 
  

HDM2 binds to an alpha-helical transactivation domain of p53, inhibiting its tumor suppressive functions. A miniaturized thermal denaturation assay was used to screen chemical libraries, resulting in the discovery of a novel series of benzodiazepinedione antagonists of the HDM2-p53 interaction. The X-ray crystal structure of improved antagonists bound to HDM2 reveals their alpha-helix mimetic properties. These optimized molecules increase the transcription of p53 target genes and decrease proliferation of tumor cells expressing wild-type p53.

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Organizational Affiliation: 

Johnson & Johnson Pharmaceutical Research & Development L.L.C., 665 Stockton Drive, Exton, Pennsylvania 19341, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Ubiquitin-protein ligase E3 Mdm2	M	110	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

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
optimized p53 peptide	P	9	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	M	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.231 
• R-Value Work: 0.197 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 41.030	α = 90.00
b = 43.590	β = 90.00
c = 54.570	γ = 90.00

Software Package:

Software Name	Purpose
CNX	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-04-29 
• Released Date: 2005-02-08 
• Deposition Author(s): Grasberger, B.L., Schubert, C., Koblish, H.K., Carver, T.E., Franks, C.F., Zhao, S.Y., Lu, T., LaFrance, L.V., Parks, D.J.

Revision History 

• Version 1.0: 2005-02-08
  Type: Initial release
• Version 1.1: 2008-04-30
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance