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

J 2000

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

TRANTÍREK, Lukáš, Milan URBÁŠEK, Richard ŠTEFL, Juli FEIGON, Vladimír SKLENÁŘ et. al.

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

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10600 1.6 Biological sciences

Country of publisher

Czech Republic

Confidentiality degree

není předmětem státního či obchodního tajemství

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

Abstract

V originále

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

Citovat

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.

@article{345311,
   author = {Trantírek, Lukáš and Urbášek, Milan and Štefl, Richard and Feigon, Juli and Sklenář, Vladimír},
   article_location = {Washington, D.C.},
   article_number = {42},
   keywords = {residual dipolar coupling; helical parameter; principal order frame; DNA; RNA; NMR; structure},
   language = {eng},
   issn = {0002-7863},
   journal = {Journal of the American Chemical Society},
   title = {A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings},
   volume = {122},
   year = {2000}
}

TY  - JOUR
ID  - 345311
AU  - Trantírek, Lukáš - Urbášek, Milan - Štefl, Richard - Feigon, Juli - Sklenář, Vladimír
PY  - 2000
TI  - A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings
JF  - Journal of the American Chemical Society
VL  - 122
IS  - 42
SP  - 10454
EP  - 10454
PB  - American Chemical Society
SN  - 00027863
KW  - residual dipolar coupling
KW  - helical parameter
KW  - principal order frame
KW  - DNA
KW  - RNA
KW  - NMR
KW  - structure
N2  - 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)
ER  -

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. \textit{Journal of the American Chemical Society}. Washington, D.C.: American Chemical Society, 2000, vol.~122, No~42, p.~10454-10455. ISSN~0002-7863.

Detailed Information on Publication Record