title: Modeling the Thermoproteaceae RNase P RNA.
abstract: The RNA component of the RNase P complex is found throughout most branches of the tree of life and is principally responsible for removing the 5' leader sequence from pre-tRNA transcripts during tRNA maturation. RNase P RNA has a number of universal core features, however variations in sequence and structure found in homologs across the tree of life require multiple Rfam covariance search models to detect accurately. We describe a new Rfam search model to enable efficient detection of the diminutive archaeal Type T RNase P RNAs, which are missed by existing Rfam models. Using the new model, we establish effective score detection thresholds, and detect four new RNase P RNA genes in recently completed genomes from the crenarchaeal family Thermoproteaceae.
authors.affiliation: Department of Biomolecular Engineering, University of California Santa Cruz, CA, USA.
authors.forename: Patricia P
authors.initials: PP
authors.lastname: Chan
authors.forename: James W
authors.initials: JW
authors.lastname: Brown
authors.forename: Todd M
authors.initials: TM
authors.lastname: Lowe
mesh_terms: D019843:Archaeal Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D008958:Models, Molecular; D012323:RNA Processing, Post-Transcriptional / Q000502:physiology; D019642:RNA, Archaeal / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D012343:RNA, Transfer / Q000235:genetics / Q000378:metabolism; D043262:Ribonuclease P / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D019624:Thermoproteaceae / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*
chemical_list: D019843:Archaeal Proteins; D019642:RNA, Archaeal; D012343:RNA, Transfer; D043262:Ribonuclease P