4OBA

Co-crystal structure of MDM2 with Inhibitor Compound 4

Structural Biology Knowledgebase: 4OBA SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.313
  • R-Value Work: 0.288

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4OBA

Classification: ligase / ligase inhibitor

Total Structure Weight: 35173.97

Macromolecule Entities
Molecule Chains Length Organism Details
E3 ubiquitin-protein ligase Mdm2 A, B, C 96 Homo sapiens EC#: 6.3.2 IUBMB
Fragment: UNP Residues 17-111
Gene Name(s): MDM2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C [(2R,5R,6R)-4-[(1S)-2-(tert-butylsulfonyl)- 1-cyclopropylethyl]-6-(3-chlorophenyl)-5- (4-chlorophenyl)-3-oxomorpholin-2-yl]acetic acid
C27 H31 Cl2 N O6 S
ZTMSSDQFJNEUNG-WMMXXEOUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
2TW IC50: 0.4 - 160 nM (100) BindingDB

IC50: 0.4 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.313
  • R-Value Work: 0.288
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 56.73 α = 90.00
b = 98.67 β = 90.00
c = 106.69 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-01-07
  • Released Date: 2014-03-19
  • Deposition author(s): Shaffer, P.L., Huang, X., Yakowec, P., Long, A.M.

Revision History

  • 2014-04-09
    Type: Citation | Details: Citation update