skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Nuclear magnetic resonance studies of the secondary structure, proton exchange dynamics, and conformational states of the 5S ribosomal RNA of Escherichia coli

Abstract

The 5S rRNA from E. coli was studied using proton NMR at 500 MHz. To simplify the spectrum of the whole molecule, two complementary, nuclease-resistant fragments were studied: fragment 1 includes bases 1-11 and 69-120 (helices I, IV, and V in their entirety), and fragment 2, bases 15-35 and 44-65 (helix III and most of helix II). The isolation and characterization of fragment 2 is described for the first time. The NMR results on fragment 2 provide the first direct physical evidence for the existence of helices II and III in the parent molecule. The preparation of fragment 1, intact in the loop at residues 87-89 and in a native conformation, is described. The nuclear Overhauser effect was used to establish base pair types of imino proton resonances and connectivities within helices in fragments 1 and 2. NOE data bearing on assignments of resonances to helix V are presented. Imino resonance assignments are suggested for base-pairs in helices II and III. NMR evidence is presented for conformational flexibility in helix III of fragment 2 and in the intact 5S RNA. The stable conformation in the presence of magnesium appears to be that in which bases G54 and C30 and G51more » and C31 are paired, while bases A52 and A53 are bulged out of the helix.« less

Authors:
Publication Date:
Research Org.:
Yale Univ., New Haven, CT (USA)
OSTI Identifier:
6592832
Resource Type:
Thesis/Dissertation
Resource Relation:
Other Information: Thesis (Ph. D)
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; RIBOSOMAL RNA; MOLECULAR STRUCTURE; ESCHERICHIA COLI; HELICAL CONFIGURATION; NMR SPECTRA; NUCLEAR MAGNETIC RESONANCE; PROTONS; BACTERIA; BARYONS; CONFIGURATION; ELEMENTARY PARTICLES; FERMIONS; HADRONS; MAGNETIC RESONANCE; MICROORGANISMS; NUCLEIC ACIDS; NUCLEONS; ORGANIC COMPOUNDS; RESONANCE; RNA; SPECTRA; 550200* - Biochemistry

Citation Formats

Leontis, N B. Nuclear magnetic resonance studies of the secondary structure, proton exchange dynamics, and conformational states of the 5S ribosomal RNA of Escherichia coli. United States: N. p., 1986. Web.
Leontis, N B. Nuclear magnetic resonance studies of the secondary structure, proton exchange dynamics, and conformational states of the 5S ribosomal RNA of Escherichia coli. United States.
Leontis, N B. 1986. "Nuclear magnetic resonance studies of the secondary structure, proton exchange dynamics, and conformational states of the 5S ribosomal RNA of Escherichia coli". United States.
@article{osti_6592832,
title = {Nuclear magnetic resonance studies of the secondary structure, proton exchange dynamics, and conformational states of the 5S ribosomal RNA of Escherichia coli},
author = {Leontis, N B},
abstractNote = {The 5S rRNA from E. coli was studied using proton NMR at 500 MHz. To simplify the spectrum of the whole molecule, two complementary, nuclease-resistant fragments were studied: fragment 1 includes bases 1-11 and 69-120 (helices I, IV, and V in their entirety), and fragment 2, bases 15-35 and 44-65 (helix III and most of helix II). The isolation and characterization of fragment 2 is described for the first time. The NMR results on fragment 2 provide the first direct physical evidence for the existence of helices II and III in the parent molecule. The preparation of fragment 1, intact in the loop at residues 87-89 and in a native conformation, is described. The nuclear Overhauser effect was used to establish base pair types of imino proton resonances and connectivities within helices in fragments 1 and 2. NOE data bearing on assignments of resonances to helix V are presented. Imino resonance assignments are suggested for base-pairs in helices II and III. NMR evidence is presented for conformational flexibility in helix III of fragment 2 and in the intact 5S RNA. The stable conformation in the presence of magnesium appears to be that in which bases G54 and C30 and G51 and C31 are paired, while bases A52 and A53 are bulged out of the helix.},
doi = {},
url = {https://www.osti.gov/biblio/6592832}, journal = {},
number = ,
volume = ,
place = {United States},
year = {1986},
month = {1}
}

Thesis/Dissertation:
Other availability
Please see Document Availability for additional information on obtaining the full-text document. Library patrons may search WorldCat to identify libraries that hold this thesis or dissertation.

Save / Share: