title: Stem-loop IV of 5S rRNA lies close to the peptidyltransferase center.
abstract: A DNA fragment containing the Escherichia coli 5S rDNA sequence linked to a T7 promoter was prepared by PCR from an M13 clone carrying the 5S-complementary sequence. The DNA was transcribed with T7 polymerase using a mixture of [alpha-32P]UTP and 4-thio-UTP, yielding a transcript in which approximately 18% of the uridine residues were randomly replaced by thiouridine. This modified 5S RNA could be reconstituted efficiently into 50S ribosomal subunits or 70S functional complexes. The reconstituted particles were irradiated at wavelengths above 300 nm, and the crosslinked ribosomal components were identified. A crosslink in high yield was reproducibly observed between the modified 5S RNA and 23S RNA, involving residue U-89 of the 5S RNA (at the loop end of helix IV) linked to nucleotide 2477 of the 23S RNA in the loop end of helix 89, immediately adjacent to the peptidyltransferase "ring." On the basis of this result, and in combination with earlier immunoelectron microscopic data, we propose a model for the orientation of the 5S RNA in the 50S subunit.
authors.affiliation: Department of Chemistry, Moscow State University, Russia.
authors.forename: O
authors.initials: O
authors.lastname: Dontsova
authors.forename: V
authors.initials: V
authors.lastname: Tishkov
authors.forename: S
authors.initials: S
authors.lastname: Dokudovskaya
authors.forename: A
authors.initials: A
authors.lastname: Bogdanov
authors.forename: T
authors.initials: T
authors.lastname: Döring
authors.forename: J
authors.initials: J
authors.lastname: Rinke-Appel
authors.forename: S
authors.initials: S
authors.lastname: Thamm
authors.forename: B
authors.initials: B
authors.lastname: Greuer
authors.forename: R
authors.initials: R
authors.lastname: Brimacombe
mesh_terms: D001483:Base Sequence; D017931:DNA Primers; D004275:DNA, Ribosomal / Q000737:chemistry / Q000378:metabolism; D004926:Escherichia coli / Q000201:enzymology / Q000235:genetics; D008961:Models, Structural; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010458:Peptidyl Transferases / Q000096:biosynthesis / Q000737:chemistry / Q000378:metabolism*; D016133:Polymerase Chain Reaction; D012341:RNA, Ribosomal, 5S / Q000096:biosynthesis / Q000737:chemistry* / Q000378:metabolism*; D012194:RNA-Directed DNA Polymerase; D016914:Ribonuclease H; D012270:Ribosomes / Q000378:metabolism; D014158:Transcription, Genetic; D014544:Uridine Triphosphate / Q000378:metabolism
chemical_list: D017931:DNA Primers; D004275:DNA, Ribosomal; D012341:RNA, Ribosomal, 5S; D010458:Peptidyl Transferases; D012194:RNA-Directed DNA Polymerase; D016914:Ribonuclease H; D014544:Uridine Triphosphate