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Figure 3 | BMC Structural Biology

Figure 3

From: Investigation and improvement of DNA cleavage models of polyamide + Cu(II) nuclease + OOH- ligands bound to DNA

Figure 3

RMSDs with respect to the starting structures in the simulations of polyamide + [Cu(IDB)OOH]+-DNA (polyamide + [Cu(IDB)OOH]+-DNA (black), polyamide + [Cu(IDB)OOH]+ (blue), and DNA alone (magenta)), RDF curves of the distal O d atom of OOH-C1'H atom (pink)/C4'H atom (navy) of sugars, probability distributions (the histogram bin width of 0.1 Å), and integration plot of probabilities of O d -C1'H (pink) and O d -C4'H (navy) distances: (A), (C), (E), (G) for hairpin polyamide + [Cu(IDB)OOH]+ -d(AATATCCACCTGCA) 2 (HPD-IDB) and (B), (D), (F) for cyclic polyamide + [Cu(IDB)OOH]+-d(CGCTAACAGGC) 2 (CPDγ-IDB).

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