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

Title: Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Ribosomal Frameshifting Motif

Abstract

To understand the role of structural elements of RNA pseudoknots in controlling the extent of -1-type ribosomal frameshifting, we determined the crystal structure of a high-efficiency frameshifting mutant of the pseudoknot from potato leaf roll virus (PLRV). Correlations of the structure with available in vitro frameshifting data for PLRV pseudoknot mutants implicate sequence and length of a stem-loop linker as modulators of frameshifting efficiency. Although the sequences and overall structures of the RNA pseudoknots from PLRV and beet western yellow virus (BWYV) are similar, nucleotide deletions in the linker and adjacent minor groove loop abolish frameshifting only with the latter. Conversely, mutant PLRV pseudoknots with up to four nucleotides deleted in this region exhibit nearly wild-type frameshifting efficiencies. The crystal structure helps rationalize the different tolerances for deletions in the PLRV and BWYV RNAs, and we have used it to build a three-dimensional model of the PRLV pseudoknot with a four-nucleotide deletion. The resulting structure defines a minimal RNA pseudoknot motif composed of 22 nucleotides capable of stimulating -1-type ribosomal frameshifts.

Authors:
; ; ; ; ; ; ;  [1];  [2];  [2];  [2]
  1. (MIT)
  2. (
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Sponsoring Org.:
USDOE
OSTI Identifier:
1008579
Resource Type:
Journal Article
Resource Relation:
Journal Name: Biochemistry-US; Journal Volume: 44; Journal Issue: (34) ; 08, 2005
Country of Publication:
United States
Language:
ENGLISH
Subject:
36 MATERIALS SCIENCE; BEETS; CRYSTAL STRUCTURE; EFFICIENCY; IN VITRO; MUTANTS; NUCLEOTIDES; RNA

Citation Formats

Pallan, Pradeep S., Marshall, William S., Harp, Joel, Jewett III, Frederic C., Wawrzak, Zdzislaw, Brown II, Bernard A., Rich, Alexander, Egli, Martin, Wake Forest), Dharmacon), and Vanderbilt). Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Ribosomal Frameshifting Motif. United States: N. p., 2010. Web. doi:10.1021/bi051061i.
Pallan, Pradeep S., Marshall, William S., Harp, Joel, Jewett III, Frederic C., Wawrzak, Zdzislaw, Brown II, Bernard A., Rich, Alexander, Egli, Martin, Wake Forest), Dharmacon), & Vanderbilt). Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Ribosomal Frameshifting Motif. United States. doi:10.1021/bi051061i.
Pallan, Pradeep S., Marshall, William S., Harp, Joel, Jewett III, Frederic C., Wawrzak, Zdzislaw, Brown II, Bernard A., Rich, Alexander, Egli, Martin, Wake Forest), Dharmacon), and Vanderbilt). Mon . "Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Ribosomal Frameshifting Motif". United States. doi:10.1021/bi051061i.
@article{osti_1008579,
title = {Crystal Structure of a Luteoviral RNA Pseudoknot and Model for a Minimal Ribosomal Frameshifting Motif},
author = {Pallan, Pradeep S. and Marshall, William S. and Harp, Joel and Jewett III, Frederic C. and Wawrzak, Zdzislaw and Brown II, Bernard A. and Rich, Alexander and Egli, Martin and Wake Forest) and Dharmacon) and Vanderbilt)},
abstractNote = {To understand the role of structural elements of RNA pseudoknots in controlling the extent of -1-type ribosomal frameshifting, we determined the crystal structure of a high-efficiency frameshifting mutant of the pseudoknot from potato leaf roll virus (PLRV). Correlations of the structure with available in vitro frameshifting data for PLRV pseudoknot mutants implicate sequence and length of a stem-loop linker as modulators of frameshifting efficiency. Although the sequences and overall structures of the RNA pseudoknots from PLRV and beet western yellow virus (BWYV) are similar, nucleotide deletions in the linker and adjacent minor groove loop abolish frameshifting only with the latter. Conversely, mutant PLRV pseudoknots with up to four nucleotides deleted in this region exhibit nearly wild-type frameshifting efficiencies. The crystal structure helps rationalize the different tolerances for deletions in the PLRV and BWYV RNAs, and we have used it to build a three-dimensional model of the PRLV pseudoknot with a four-nucleotide deletion. The resulting structure defines a minimal RNA pseudoknot motif composed of 22 nucleotides capable of stimulating -1-type ribosomal frameshifts.},
doi = {10.1021/bi051061i},
journal = {Biochemistry-US},
number = (34) ; 08, 2005,
volume = 44,
place = {United States},
year = {Mon Mar 08 00:00:00 EST 2010},
month = {Mon Mar 08 00:00:00 EST 2010}
}