4YDX : Crystal structure of cisplatin bound to a human copper chaperone (monomer) - new refinement

  • Amie K. Boal (Contributor)
  • Amy C Rosenzweig (Contributor)
  • I. G. Shabalin (Contributor)
  • Zbigniew Dauter (Contributor)
  • Mariusz Jask√≥lski (Contributor)
  • Wladek Minor (Contributor)
  • Alexander Wlodawer (Contributor)

Dataset

Description

Experimental Technique/Method:X-RAY DIFFRACTION
Resolution:1.6
Classification:METAL TRANSPORT
Release Date:2015-03-04
Deposition Date:2015-02-23
Revision Date:2015-07-08#2015-09-09#2015-09-16#2017-09-06
Molecular Weight:7822.78
Macromolecule Type:Protein
Residue Count:67
Atom Site Count:539
DOI:10.2210/pdb4ydx/pdb

Abstract:
The anticancer activity of platinum-containing drugs such as cisplatin and carboplatin is considered to primarily arise from their interactions with nucleic acids; nevertheless, these drugs, or the products of their hydrolysis, also bind to proteins, potentially leading to the known side effects of the treatments. Here, over 40 crystal structures deposited in the Protein Data Bank (PDB) of cisplatin and carboplatin complexes of several proteins were analysed. Significant problems of either a crystallographic or a chemical nature were found in most of the presented atomic models and they could be traced to less or more serious deficiencies in the data-collection and refinement procedures. The re-evaluation of these data and models was possible thanks to their mandatory or voluntary deposition in publicly available databases, emphasizing the point that the availability of such data is critical for making structural science reproducible. Based on this analysis of a selected group of macromolecular structures, the importance of deposition of raw diffraction data is stressed and a procedure for depositing, tracking and using re-refined crystallographic models is suggested.
Date made available2015
PublisherRCSB-PDB

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