2GV2

MDM2 in complex with an 8-mer p53 peptide analogue


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystallographic Analysis of an 8-mer p53 Peptide Analogue Complexed with MDM2.

Sakurai, K.Schubert, C.Kahne, D.

(2006) J.Am.Chem.Soc. 128: 11000-11001

  • DOI: 10.1021/ja063102j

  • PubMed Abstract: 
  • The most potent inhibitor of the p53-MDM2 interaction reported to date is an 8-mer p53 peptide analogue (Novartis peptide), which contains 6-chlorotryptophane (Cl-Trp) and phosphonomethylphenylalanine (Pmp) as key residues for the enhanced activity. ...

    The most potent inhibitor of the p53-MDM2 interaction reported to date is an 8-mer p53 peptide analogue (Novartis peptide), which contains 6-chlorotryptophane (Cl-Trp) and phosphonomethylphenylalanine (Pmp) as key residues for the enhanced activity. We report here a crystal structure of the co-complex between MDM2 and the Novartis peptide solved at 1.8 A resolution. The structural basis for the role of the two aromatic residues are delineated by comparing the present structure with crystal structures of the MDM2 co-complex bound to other inhibitors including the wt-p53 peptide itself.


    Organizational Affiliation

    Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ubiquitin-protein ligase E3 Mdm2
A
110Homo sapiensMutation(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
MoleculeChainsSequence LengthOrganismDetails
8-MER P53 PEPTIDE ANALOGUE
B
9N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Modified Residues  5 Unique
IDChainsTypeFormula2D DiagramParent
6CW
Query on 6CW
B
L-PEPTIDE LINKINGC11 H11 Cl N2 O2TRP
AIB
Query on AIB
B
L-PEPTIDE LINKINGC4 H9 N O2ALA
1AC
Query on 1AC
B
PEPTIDE LINKINGC4 H7 N O2ALA
PM3
Query on PM3
B
L-PEPTIDE LINKINGC10 H14 N O5 PPHE
ACE
Query on ACE
B
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.192 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 41.660α = 90.00
b = 44.100β = 90.00
c = 59.150γ = 90.00
Software Package:
Software NamePurpose
ADSCdata collection
HKL-2000data scaling
CNXphasing
CNXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-09-05
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance