3VZV

Crystal structure of human mdm2 with a dihydroimidazothiazole inhibitor

Structural Biology Knowledgebase: 3VZV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.248

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3VZV

Classification: LIGASE / LIGASE INHIBITOR

Total Structure Weight: 21553.24

Macromolecule Entities
Molecule Chains Length Organism Details
E3 ubiquitin-protein ligase Mdm2 A, B 87 Homo sapiens EC#: 6.3.2 IUBMB
Fragment: SWIB domain, UNP residues 25-109
Mutation: L33E
Gene Name(s): MDM2 Gene View

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

A, B 1-{[(5R,6S)-5,6-bis(4-chlorophenyl)-6-methyl- 3-(propan-2-yl)-5,6-dihydroimidazo[2,1-b][1,3]thiazol- 2-yl]carbonyl}-N,N-dimethyl-L-prolinamide
C29 H32 Cl2 N4 O2 S
BWUMOCARMRPCIP-HQQGYVGFSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
VZV N/A in BindingDB
N/A in BindingMoad
IC50: 9.2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.248
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.26 α = 90.00
b = 66.08 β = 90.00
c = 80.42 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-10-16
  • Released Date: 2013-02-06
  • Deposition author(s): Shimizu, H., Katakura, S., Miyazaki, M., Naito, H., Sugimoto, Y., Kawato, H., Okayama, T., Soga, T.

Revision History

No revisions since initial release