Symmetry and structure of RNA and DNA triple helices

Biopolymers
G RaghunathanV Sasisekharan

Abstract

Despite wide interest in nucleic acid triple helices, there has been no stereochemically satisfactory structure of an RNA triple helix in atomic detail. AN RNA triplex structure has previously been proposed based on fiber diffraction and molecular modeling [S. Arnott and P. J. Bond (1973) Nature New Biology, Vol. 244, pp. 99-101; S. Arnott, P. J. Bond, E. Selsing, and P. J. C. Smith (1976) Nucleic Acids Research, Vol. 3, pp. 2459-2470], but it has nonallowed close contacts at every triplet and is therefore not stereochemically acceptable. We propose here a new model for an RNA triple helix in which the three chains have identical backbone conformations and are symmetry related. There are no short contacts. The modeling employs a novel geometrical approach using the linked atom least squares [P. J. C. Smith and S. Arnott (1978) Acta Crystallographica, Vol. A34, pp. 3-11] program and is not based on energy minimization. In general, the method leads to a range of possible structures rather than a unique structure. In the present case, however, the constraints resulting from the introduction of a third strand limit the possible structures to a very small range of conformation space. This method was used previously to obtain a model...Continue Reading

References

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Citations

Jun 1, 1996·Current Opinion in Structural Biology·S Louise-MayE Westhof
Jun 1, 1996·Current Opinion in Structural Biology·J S SunC Hélène
Nov 24, 1999·Journal of Biomolecular Structure & Dynamics·V M Dadarlat, V K Saxena
Aug 19, 2000·Journal of Biomolecular Structure & Dynamics·R ChandrasekaranS Arnott
Jun 28, 2017·Journal of Molecular Biology·L Ponoop Prasad PatroThenmalarchelvi Rathinavelan
Jan 14, 2020·Nucleic Acids Research·Agnieszka RuszkowskaJessica A Brown
May 23, 2020·Wiley Interdisciplinary Reviews. RNA·Jessica A Brown
Jun 1, 2010·Bioconjugate Chemistry·Akash K Jain, Santanu Bhattacharya

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