Unknown

Dataset Information

0

Structure-function analysis of the ribozymes of chrysanthemum chlorotic mottle viroid: a loop-loop interaction motif conserved in most natural hammerheads.


ABSTRACT: Loop-loop tertiary interactions play a key role in the folding and catalytic activity of natural hammerhead ribozymes. Using a combination of NMR spectroscopy, site-directed mutagenesis and kinetic and infectivity analyses, we have examined the structure and function of loops 1 and 2 of the (+) and (-) hammerheads of chrysanthemum chlorotic mottle viroid RNA. In both hammerheads, loop 1 is a heptanucleotide hairpin loop containing an exposed U at its 5' side and an extrahelical U at its 3'-side critical for the catalytic activity of the ribozyme in vitro and for viroid infectivity in vivo, whereas loop 2 has a key opened A at its 3'-side. These structural features promote a specific loop-loop interaction motif across the major groove. The essential features of this tertiary structure element, base pairing between the 5' U of loop 1 and the 3' A of loop 2, and interaction of the extrahelical pyrimidine of loop 1 with loop 2, are likely shared by a significant fraction of natural hammerheads.

SUBMITTER: Dufour D 

PROVIDER: S-EPMC2632901 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature

altmetric image

Publications

Structure-function analysis of the ribozymes of chrysanthemum chlorotic mottle viroid: a loop-loop interaction motif conserved in most natural hammerheads.

Dufour David D   de la Peña Marcos M   Gago Selma S   Flores Ricardo R   Gallego José J  

Nucleic acids research 20081129 2


Loop-loop tertiary interactions play a key role in the folding and catalytic activity of natural hammerhead ribozymes. Using a combination of NMR spectroscopy, site-directed mutagenesis and kinetic and infectivity analyses, we have examined the structure and function of loops 1 and 2 of the (+) and (-) hammerheads of chrysanthemum chlorotic mottle viroid RNA. In both hammerheads, loop 1 is a heptanucleotide hairpin loop containing an exposed U at its 5' side and an extrahelical U at its 3'-side  ...[more]

Similar Datasets

| S-EPMC23434 | biostudies-literature
| S-EPMC5715398 | biostudies-literature
| S-EPMC1869044 | biostudies-literature
| S-EPMC4541285 | biostudies-literature
| S-EPMC5274516 | biostudies-literature
| S-EPMC5216416 | biostudies-literature
| S-EPMC9901749 | biostudies-literature
| S-EPMC6823291 | biostudies-literature
| S-EPMC3397355 | biostudies-literature
| S-EPMC6705399 | biostudies-literature