title: Solution structure of RNase P RNA.
abstract: The ribonucleoprotein enzyme ribonuclease P (RNase P) processes tRNAs by cleavage of precursor-tRNAs. RNase P is a ribozyme: The RNA component catalyzes tRNA maturation in vitro without proteins. Remarkable features of RNase P include multiple turnovers in vivo and ability to process diverse substrates. Structures of the bacterial RNase P, including full-length RNAs and a ternary complex with substrate, have been determined by X-ray crystallography. However, crystal structures of free RNA are significantly different from the ternary complex, and the solution structure of the RNA is unknown. Here, we report solution structures of three phylogenetically distinct bacterial RNase P RNAs from Escherichia coli, Agrobacterium tumefaciens, and Bacillus stearothermophilus, determined using small angle X-ray scattering (SAXS) and selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE) analysis. A combination of homology modeling, normal mode analysis, and molecular dynamics was used to refine the structural models against the empirical data of these RNAs in solution under the high ionic strength required for catalytic activity.
authors.affiliation: Department of MCD Biology, University of Colorado, Boulder, Colorado 80309, USA.
authors.forename: Alexei V
authors.initials: AV
authors.lastname: Kazantsev
authors.forename: Robert P
authors.initials: RP
authors.lastname: Rambo
authors.forename: Sina
authors.initials: S
authors.lastname: Karimpour
authors.forename: John
authors.initials: J
authors.lastname: Santalucia
authors.forename: John A
authors.initials: JA
authors.lastname: Tainer
authors.forename: Norman R
authors.initials: NR
authors.lastname: Pace
mesh_terms: D016960:Agrobacterium tumefaciens / Q000201:enzymology; D001665:Binding Sites; D002384:Catalysis; D004926:Escherichia coli / Q000201:enzymology; D001411:Geobacillus stearothermophilus / Q000201:enzymology; D009690:Nucleic Acid Conformation; D012329:RNA, Bacterial / Q000737:chemistry* / Q000378:metabolism; D016337:RNA, Catalytic; D012343:RNA, Transfer / Q000737:chemistry / Q000378:metabolism; D043262:Ribonuclease P / Q000737:chemistry* / Q000378:metabolism; D053838:Scattering, Small Angle; D012996:Solutions; D013379:Substrate Specificity
chemical_list: D012329:RNA, Bacterial; D016337:RNA, Catalytic; D012996:Solutions; D012343:RNA, Transfer; D043262:Ribonuclease P