title: Nuclear magnetic resonance structure of the prohead RNA E-loop hairpin.
abstract: The Bacillus subtilis phage phi29 packaging motor requires prohead RNA for genome encapsidation. The nuclear magnetic resonance structure of the prohead RNA E-loop hairpin, r(5'AUUGAGUU), is presented and compared to predictions from MC-SYM. The prohead RNA E-loop hairpins contain sequences similar to rRNA hairpins. Comparison of predicted and experimentally determined prohead and ribosomal hairpin structures reveals that sequence similarity is a stronger determinant of hairpin structural similarity than grouping similar types of RNA. All the hairpins contain a U-turn motif but differ in the first noncanonical pair and backbone orientation. These structures provide benchmarks for further improvements in RNA structure predictions from sequence.
authors.affiliation: Department of Chemistry and Biochemistry, University of Oklahoma, 620 Parrington Oval, Norman, Oklahoma 73019, USA.
authors.forename: Steven
authors.initials: S
authors.lastname: Harris
authors.forename: Susan J
authors.initials: SJ
authors.lastname: Schroeder
mesh_terms: D017103:Bacillus Phages / Q000737:chemistry / Q000235:genetics*; D001412:Bacillus subtilis / Q000821:virology*; D001483:Base Sequence; D019906:Nuclear Magnetic Resonance, Biomolecular; D009690:Nucleic Acid Conformation; D012367:RNA, Viral / Q000737:chemistry*
chemical_list: D012367:RNA, Viral