PT - JOURNAL ARTICLE AU - Claire Toffano-Nioche AU - Daniel Gautheret AU - Fabrice Leclerc TI - Revisiting the Structure/Function Relationships of H/ACA(-like) RNAs: A Unified Model for Euryarchaea and Crenarchaea AID - 10.1101/016246 DP - 2015 Jan 01 TA - bioRxiv PG - 016246 4099 - http://biorxiv.org/content/early/2015/03/10/016246.short 4100 - http://biorxiv.org/content/early/2015/03/10/016246.full AB - A structural and functional classification of H/ACA and H/ACA-like motifs is proposed from the analysis of the H/ACA guide RNAs which have been identified previously in the genomes of Euryarchaea (Pyrococcus) and Crenarchaea (Pyrobaculum). A unified structure/function model is proposed based on the common structural determinants shared by H/ACA and H/ACA-like motifs in both Euryarchaea and Crenarchaea. Using a computational approach, structural and energetic rules for the guide-target RNA-RNA interactions are derived from structural and functional data on the H/ACA RNP particles. H/ACA(-like) motifs found in Pyrococcus are evaluated through the classification and their biological relevance is discussed. Extra-ribosomal targets found in both Pyrococcus and Pyrobaculum are presented as testable gene candidates which might support the hypothesis of a gene regulation mediated by H/ACA(-like) guide RNAs.