4R15

High-resolution crystal structure of Z-DNA in complex with Cr3+ cations

Summary for 4R15

• Entry DOI: 10.2210/pdb4r15/pdb
• Related: 1OMK 2HTO 3P4J 3WBO 4HIF 4HIG 4OCB
• Descriptor: DNA (5'-D(*CP*GP*CP*GP*CP*G)-3'), CHROMIUM ION (3 entities in total)
• Functional Keywords: self-complementary dna, z-dna, dna
• Total number of polymer chains: 2
• Total formula weight: 3776.40

Authors

Drozdzal, P.,Gilski, M.,Kierzek, R.,Lomozik, L.,Jaskolski, M. (deposition date: 2014-08-04, release date: 2015-03-04, Last modification date: 2023-09-20)

Primary citation

Drozdzal, P.,Gilski, M.,Kierzek, R.,Lomozik, L.,Jaskolski, M.
High-resolution crystal structure of Z-DNA in complex with Cr(3+) cations.
J.Biol.Inorg.Chem., 20:595-602, 2015

PubMed Abstract: This work is part of our project aimed at characterizing metal-binding properties of left-handed Z-DNA helices. The three Cr(3+) cations found in the asymmetric unit of the d(CGCGCG)2-Cr(3+) crystal structure do not form direct coordination bonds with atoms of the Z-DNA molecule. Instead, the hydrated Cr(3+) ions are engaged in outer-sphere interactions with phosphate groups and O6 and N7 guanine atoms of the DNA. The Cr(3+)(1) and Cr(3+)(2) ions have disordered coordination spheres occupied by six water molecules each. These partial-occupancy chromium cations are 2.354(15) Å apart and are bridged by three water molecules from their hydration spheres. The Cr(3+)(3) cation has distorted square pyramidal geometry. In addition to the high degree of disorder of the DNA backbone, alternate conformations are also observed for the deoxyribose and base moieties of the G2 nucleotide. Our work illuminates the question of conformational flexibility of Z-DNA and its interaction mode with transition-metal cations.

PubMed: 25687556
DOI: 10.1007/s00775-015-1247-5

Experimental method

X-RAY DIFFRACTION (0.97 Å)