4PPO

First Crystal Structure for an Oxaliplatin-Protein Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

The X-ray structure of the complex formed in the reaction between oxaliplatin and lysozyme.

Messori, L.Marzo, T.Merlino, A.

(2014) Chem.Commun.(Camb.) 50: 8360-8362

  • DOI: 10.1039/c4cc02254h

  • PubMed Abstract: 
  • The X-ray structure of the adduct formed between oxaliplatin and the model protein hen egg white lysozyme is reported here. The structure is compared with those of cisplatin and carboplatin derivatives, previously solved. Relevant changes are highlig ...

    The X-ray structure of the adduct formed between oxaliplatin and the model protein hen egg white lysozyme is reported here. The structure is compared with those of cisplatin and carboplatin derivatives, previously solved. Relevant changes are highlighted among these crystal structures that are suggestive of significant differences in the reactivity of platinum drugs with this protein; possible biological implications are discussed.


    Organizational Affiliation

    Department of Chemistry, University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino (FI), Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lysozyme C
A
129Gallus gallusGene Names: LYZ
EC: 3.2.1.17
Find proteins for P00698 (Gallus gallus)
Go to Gene View: LYZ
Go to UniProtKB:  P00698
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
1PT
Query on 1PT

Download SDF File 
Download CCD File 
A
CYCLOHEXANE-1(R),2(R)-DIAMINE-PLATINUM(II)
OXALIPLATIN
C6 H14 N2 Pt
SGLJYTWMWIAGEU-NHVQHECABN
 Ligand Interaction
NO3
Query on NO3

Download SDF File 
Download CCD File 
A
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.180 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 77.049α = 90.00
b = 77.049β = 90.00
c = 37.287γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
CNSphasing
CrystalCleardata collection
REFMACrefinement
CNSrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-01-14
    Type: Initial release