2K0V

High Resolution Solution NMR Structures of Undamaged DNA Dodecamer Duplex

Summary for 2K0V

• Entry DOI: 10.2210/pdb2k0v/pdb
• Related: 2K0T 2K0U 2K0W
• Descriptor: DNA (5'-D(*DCP*DCP*DTP*DCP*DTP*DGP*DGP*DTP*DCP*DTP*DCP*DC)-3'), DNA (5'-D(*DGP*DGP*DAP*DGP*DAP*DCP*DCP*DAP*DGP*DAP*DGP*DG)-3') (2 entities in total)
• Functional Keywords: undamaged dna duplex, dna
• Total number of polymer chains: 2
• Total formula weight: 7326.78

Authors

Bhattacharyya, D.,King, C.L.,Chaney, S.G.,Campbell, S.L. (deposition date: 2008-02-15, release date: 2009-02-03, Last modification date: 2024-05-01)

Primary citation

Bhattacharyya, D.,Ramachandran, S.,Sharma, S.,Pathmasiri, W.,King, C.L.,Baskerville-Abraham, I.,Boysen, G.,Swenberg, J.A.,Campbell, S.L.,Dokholyan, N.V.,Chaney, S.G.
Flanking Bases Influence the Nature of DNA Distortion by Platinum 1,2-Intrastrand (GG) Cross-Links.
Plos One, 6:e23582-e23582, 2011

PubMed Abstract: The differences in efficacy and molecular mechanisms of platinum anti-cancer drugs cisplatin (CP) and oxaliplatin (OX) are thought to be partially due to the differences in the DNA conformations of the CP and OX adducts that form on adjacent guanines on DNA, which in turn influence the binding of damage-recognition proteins that control downstream effects of the adducts. Here we report a comprehensive comparison of the structural distortion of DNA caused by CP and OX adducts in the TGGT sequence context using nuclear magnetic resonance (NMR) spectroscopy and molecular dynamics (MD) simulations. When compared to our previous studies in other sequence contexts, these structural studies help us understand the effect of the sequence context on the conformation of Pt-GG DNA adducts. We find that both the sequence context and the type of Pt-GG DNA adduct (CP vs. OX) play an important role in the conformation and the conformational dynamics of Pt-DNA adducts, possibly explaining their influence on the ability of many damage-recognition proteins to bind to Pt-DNA adducts.

PubMed: 21853154
DOI: 10.1371/journal.pone.0023582

Experimental method

SOLUTION NMR