1d26
From Proteopedia
|
EFFECT OF A SINGLE 3'-METHYLENE PHOSPHONATE LINKAGE ON THE CONFORMATION OF AN A-DNA OCTAMER DOUBLE HELIX
Overview
The three-dimensional structure of the self-complementary DNA octamer, d(GCCCGpGGC) has been determined in the crystalline state using X-ray, diffraction data to a nominal resolutoin of 2.12 measured from a very, small crystal at DESY, Hamburg. The structure was refined with, stereochemical restraints to an R value of 17.1%. d(GCCCGpGGC), containing, one single 3'-methylene phosphonate linkage (denoted p), forms an A-DNA, double helix with strict dyad symmetry, that is distinct from canonical, A-DNA by a wide open major groove and a small average base-pair, inclination against the helix axis. The conformation of the unmodified, control d(GCCCGGGC) is known from an X-ray analysis of isomorphous, crystals (Heinemann et al. (1987) Nucleic Acids Res. 15, 9531-9550)., Comparison of the two structures reveals only minor conformational, differences, most notably in the pucker of the reduced deoxyribose. It is, suggested that oligonucleotides with charged 3'-methylene phosphonate, groups may form stable duplexes with complementary DNA or RNA strands, rendering them candidates for use as gene-regulatory antisense probes.
About this Structure
1D26 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Effect of a single 3'-methylene phosphonate linkage on the conformation of an A-DNA octamer double helix., Heinemann U, Rudolph LN, Alings C, Morr M, Heikens W, Frank R, Blocker H, Nucleic Acids Res. 1991 Feb 11;19(3):427-33. PMID:2011517
Page seeded by OCA on Sun Nov 25 02:18:40 2007
