Abstract
We have used NMR spectroscopy to study a pyrimidine·purine·pyrimidine DNA triplex containing a non-natural base, 1-(2-deoxy-β-D-ribofuranosyl)- 4-(3-benzamido)phenylimidazole (D 3), in the third strand. The D 3base has been previously shown to specifically recognize T·A and C·G base-pairs viaintercalation on the 3′ side (with respect to the purine strand) of the target base pair, instead of forming sequence-specific hydrogen bonds. 1H resonance assignments have been made for the D 3base and most of the non-loop portion of the triplex. The solution structure of the triplex was calculated using restrained molecular dynamics and complete relaxation matrix refinement. The duplex portion of the triplex has an over-all helical structure that is more similar to B-DNA than to A-DNA. The three aromatic rings of the D 3base stack on the bases of all three strands and mimic a triplet. The conformation of the D 3base and its sequence specificity are discussed.
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
