1AU6

SOLUTION STRUCTURE OF DNA D(CATGCATG) INTERSTRAND-CROSSLINKED BY BISPLATIN COMPOUND (1,1/T,T), NMR, MINIMIZED AVERAGE STRUCTURE

• PDB DOI: https://doi.org/10.2210/pdb1AU6/pdb
• NAKB: 1AU6

• Classification: DNA
• Mutation(s): No 


• Deposited: 1997-09-11 Released: 1998-02-25 
• Deposition Author(s): Yang, D., Van Boom, S.S.G.E., Reedijk, J., Van Boom, J.H., Farrell, N., Wang, A.H.-J.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 1 
• Conformers Submitted: 1 

Literature

A novel DNA structure induced by the anticancer bisplatinum compound crosslinked to a GpC site in DNA.

Yang, D., van Boom, S.S., Reedijk, J., van Boom, J.H., Farrell, N., Wang, A.H.

(1995) Nat Struct Biol 2: 577-586

• PubMed: 7664126 
• DOI: https://doi.org/10.1038/nsb0795-577
• Primary Citation of Related Structures:  
  1AU6


• PubMed Abstract: 
  

  The bifunctional platinum compound, [(trans-PtCI(NH)3)2)2(H2N(CH2)4NH2)]2+, forms a stable adduct with the self-complementary DNA oligomer CATGCATG, with the two platinum atoms coordinated at the N7 positions of the two symmetrical G4 nucleotides. The NMR-derived structure shows that the DNA octamer forms a novel hairpin structure with the platinated G4 residue adopting a syn conformation and the guanine base in the minor groove. Two such hairpins stack end-over-end and are linked together by the butanediamine tether to form a dumbbell structure. Such unusual structural distortion is different from that of the anticancer drug cisplatin-DNA adduct and may provide clues to explain the distinct biological activities of the two compounds.

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Organizational Affiliation: 

Biophysics Division, University of Illinois at Urbana-Champaign 61801, USA.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5.47 kDa 
• Atom Count: 334 
• Modelled Residue Count: 16 
• Deposited Residue Count: 16 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*CP*AP*TP*GP*CP*AP*TP*G)-3')	A, B	8	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BPT	C [auth A]	BIS(TRANS-PLATINUM ETHYLENEDIAMINE DIAMINE CHLORO)COMPLEX C4 H24 Cl2 N6 Pt2 IVVNZXXPAYQGSH-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 1 
• Conformers Submitted: 1 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-02-25 
Deposition Author(s): Yang, D., Van Boom, S.S.G.E., Reedijk, J., Van Boom, J.H., Farrell, N., Wang, A.H.-J.

Revision History  

• Version 1.0: 1998-02-25
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-16
  Changes: Database references, Derived calculations, Other