Cargando…

Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure

The glmS ribozyme is a self-cleaving RNA catalyst that resides in the 5′-untranslated region of glmS mRNA in certain bacteria. The ribozyme is specifically activated by glucosamine-6-phosphate (GlcN6P), the metabolic product of the GlmS protein, and is thus proposed to provide a feedback mechanism o...

Descripción completa

Detalles Bibliográficos
Autor principal: Soukup, Garrett A.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2006
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1361622/
https://www.ncbi.nlm.nih.gov/pubmed/16464827
http://dx.doi.org/10.1093/nar/gkj497
_version_ 1782126718191927296
author Soukup, Garrett A.
author_facet Soukup, Garrett A.
author_sort Soukup, Garrett A.
collection PubMed
description The glmS ribozyme is a self-cleaving RNA catalyst that resides in the 5′-untranslated region of glmS mRNA in certain bacteria. The ribozyme is specifically activated by glucosamine-6-phosphate (GlcN6P), the metabolic product of the GlmS protein, and is thus proposed to provide a feedback mechanism of riboswitch regulation. Both phylogenetic and biochemical analyses of the glmS ribozyme have established a highly conserved core sequence and secondary structure required for GlcN6P-dependent self-cleavage. However, the high degree of nucleotide conservation offers few clues regarding the higher-order structural organization of the catalytic core. To further investigate core ribozyme structure, minimal ‘consensus-type’ glmS ribozymes that retain GlcN6P-dependent activity were produced. Mutational analyses of consensus-type glmS ribozymes support a model for core ribozyme folding through a pseudoknot structure formed by the interaction of two highly conserved sequence segments. Moreover, GlcN6P-dependent function is demonstrated for bimolecular constructs in which substrate interaction with the ribozyme is minimally comprised of sequence representing that involved in putative pseudoknot formation. These studies suggest that the glmS ribozyme adopts an intricate multi-strand catalytic core through the formation of a pseudoknot structure, and provide a refined model for further considering GlcN6P interaction and GlcN6P-dependent ribozyme function.
format Text
id pubmed-1361622
institution National Center for Biotechnology Information
language English
publishDate 2006
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-13616222006-02-09 Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure Soukup, Garrett A. Nucleic Acids Res Article The glmS ribozyme is a self-cleaving RNA catalyst that resides in the 5′-untranslated region of glmS mRNA in certain bacteria. The ribozyme is specifically activated by glucosamine-6-phosphate (GlcN6P), the metabolic product of the GlmS protein, and is thus proposed to provide a feedback mechanism of riboswitch regulation. Both phylogenetic and biochemical analyses of the glmS ribozyme have established a highly conserved core sequence and secondary structure required for GlcN6P-dependent self-cleavage. However, the high degree of nucleotide conservation offers few clues regarding the higher-order structural organization of the catalytic core. To further investigate core ribozyme structure, minimal ‘consensus-type’ glmS ribozymes that retain GlcN6P-dependent activity were produced. Mutational analyses of consensus-type glmS ribozymes support a model for core ribozyme folding through a pseudoknot structure formed by the interaction of two highly conserved sequence segments. Moreover, GlcN6P-dependent function is demonstrated for bimolecular constructs in which substrate interaction with the ribozyme is minimally comprised of sequence representing that involved in putative pseudoknot formation. These studies suggest that the glmS ribozyme adopts an intricate multi-strand catalytic core through the formation of a pseudoknot structure, and provide a refined model for further considering GlcN6P interaction and GlcN6P-dependent ribozyme function. Oxford University Press 2006 2006-02-07 /pmc/articles/PMC1361622/ /pubmed/16464827 http://dx.doi.org/10.1093/nar/gkj497 Text en © The Author 2006. Published by Oxford University Press. All rights reserved
spellingShingle Article
Soukup, Garrett A.
Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title_full Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title_fullStr Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title_full_unstemmed Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title_short Core requirements for glmS ribozyme self-cleavage reveal a putative pseudoknot structure
title_sort core requirements for glms ribozyme self-cleavage reveal a putative pseudoknot structure
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1361622/
https://www.ncbi.nlm.nih.gov/pubmed/16464827
http://dx.doi.org/10.1093/nar/gkj497
work_keys_str_mv AT soukupgarretta corerequirementsforglmsribozymeselfcleavagerevealaputativepseudoknotstructure