A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings

TRANTÍREK, Lukáš, Milan URBÁŠEK, Richard ŠTEFL, Juli FEIGON and Vladimír SKLENÁŘ. A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings. Journal of the American Chemical Society. Washington, D.C.: American Chemical Society, 2000, vol. 122, No 42, p. 10454-10455. ISSN 0002-7863.

Basic information

• Original name: A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings
• Authors: TRANTÍREK, Lukáš (203 Czech Republic), Milan URBÁŠEK, Richard ŠTEFL (203 Czech Republic), Juli FEIGON and Vladimír SKLENÁŘ (203 Czech Republic, guarantor).
• Edition: Journal of the American Chemical Society, Washington, D.C. American Chemical Society, 2000, 0002-7863.

Other information

• Original language: English
• Type of outcome: Article in a journal
• Field of Study: 10600 1.6 Biological sciences
• Country of publisher: Czech Republic
• Confidentiality degree: is not subject to a state or trade secret
• Impact factor: Impact factor: 6.025
• RIV identification code: RIV/00216224:14310/00:00004025
• Organization unit: Faculty of Science
• UT WoS: 000090137000023
• Keywords in English: residual dipolar coupling; helical parameter; principal order frame; DNA; RNA; NMR; structure
• Tags: DNA, helical parameter, NMR, principal order frame, residual dipolar coupling, RNA, structure

Abstract

Helical parameters describing the base-stacking and base-pairing interactions in nucleic acids are not accessible directly from X-ray or NMR experimental data. Their values can be obtained only by the analysis of refined structures. This Communication presents a novel approach for direct determination of rotational helical parameters without a structure refinement. The METHADON (MEthod for deTermination of HelicAl parameters using Dipolar cOupliNgs) procedure is based on the Saupe order matrix analysis of at least five NMR residual dipolar couplings per base and takes advantage of the restricted mobility and rigid (and well-defined) geometry of purine and pyrimidine bases. The method is demonstrated on the DNA dodecamer d(CGCGAATTCGCG)

Links

• MSM 143100005, plan (intention): Name: Strukturně-funkční vztahy biomolekul a jejich role v metabolismu

Investor: Ministry of Education, Youth and Sports of the CR, Biomolecular Structure-function Relationships and their role in the Metabolism

• VS96095, research and development project: Name: Laboratoř struktury a dynamiky biomolekul

Investor: Ministry of Education, Youth and Sports of the CR, Laboratory of Structure and Dynamics of Biomolecules