Base-intercalated and base-wedged stacking elements in 3D-structure of RNA and RNA–protein complexes

Baulin, E.; Metelev, V.; Bogdanov, A.

Авторы: Baulin Eugene, Metelev Valeriy, Bogdanov Alexey
Журнал: Nucleic Acids Research
Год издания: 2020
Издательство: Oxford University Press
Местоположение издательства: United Kingdom
DOI: 10.1093/nar/gkaa610
Аннотация: Along with nucleobase pairing, base-base stacking interactions are one of the two main typesof strong non-covalent interactions that define theunique secondary and tertiary structure of RNA. Inthis paper we studied two subfamilies of nucleobaseinserted stacking structures: (i) with any base intercalated between neighboring nucleotide residues(base-intercalated element, BIE, i + 1); (ii) with anybase wedged into a hydrophobic cavity formed byheterocyclic bases of two nucleotides which are onenucleotide apart in sequence (base-wedged element,BWE, i + 2). We have exploited the growing databaseof natively folded RNA structures in Protein DataBank to analyze the distribution and structural role ofthese motifs in RNA. We found that these structuralelements initially found in yeast tRNAPhe are quitewidespread among the tertiary structures of variousRNAs. These motifs perform diverse roles in RNA3D structure formation and its maintenance. Theycontribute to the folding of RNA bulges and loopsand participate in long-range interactions of singlestranded stretches within RNA macromolecules. Furthermore, both base-intercalated and base-wedgedmotifs participate directly or indirectly in the formation of RNA functional centers, which interact withvarious ligands, antibiotics and proteins.
Добавил в систему: Метелев Валерий Георгиевич

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Base-intercalated and base-wedged stacking elements in 3D-structure of RNA and RNA–protein complexesстатья

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