32UV | pdb_000032uv

Crystal structure of oxaliplatin/B-DNA adduct

• PDB DOI: https://doi.org/10.2210/pdb32UV/pdb
• NAKB: 32UV

• Classification: DNA
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2026-07-27 Released: 2026-11-04 
• Deposition Author(s): Tito, G., Troisi, R., Ferraro, G., Sica, F., Merlino, A.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 
  0.274 (Depositor), 0.286 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.239 (DCC) 
• R-Value Observed: 
  0.227 (Depositor) 

Starting Model: experimental

Literature

To Be Published

Tito, G., Troisi, R., Ferraro, G., Sica, F., Merlino, A.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 7.55 kDa 
• Atom Count: 526 
• Modeled Residue Count: 24 
• Deposited Residue Count: 24 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')	A, B	12	synthetic construct

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PT (Subject of Investigation/LOI)	D [auth B]	PLATINUM (II) ION Pt HRGDZIGMBDGFTC-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free:  0.274 (Depositor), 0.286 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.239 (DCC) 
• R-Value Observed: 0.227 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.73	α = 90
b = 40.28	β = 90
c = 65.59	γ = 90

Software Package:

Software Name	Purpose
autoPROC	data processing
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-11-04 
Deposition Author(s): Tito, G., Troisi, R., Ferraro, G., Sica, F., Merlino, A.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2026-11-04
  Type: Initial release
  
• Version 1.1: 2026-11-11
  Changes: Database references