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Crystallization and preliminary X-ray diffraction analysis of the barley yellow dwarf virus cap-independent translation element

Kraft, Jelena J. and Hoy, Julie A. and Miller, W. Allen (2011) Crystallization and preliminary X-ray diffraction analysis of the barley yellow dwarf virus cap-independent translation element. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications, 67 (5). pp. 561-564. ISSN 1744-3091. PMCID PMC3087640. https://resolver.caltech.edu/CaltechAUTHORS:20160908-152227723

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Abstract

Barley yellow dwarf virus (BYDV) RNA lacks a 5' m^7GTP cap, yet it is translated efficiently because it contains a 105-base BYDV-like cap-independent translation element (BTE) in the 3' untranslated region (UTR). To understand how the BTE outcompetes the host mRNA for protein-synthesis machinery, its three-dimensional structure is being determined at high resolution. The purification using transcription from DNA containing 2'-O-methyl nucleotides and preliminary crystallographic analyses of the BTE RNA are presented here. After varying the BTE sequence and crystallization-condition optimization, crystals were obtained that diffracted to below 5 Å resolution, with a complete data set being collected to 6.9 Å resolution. This crystal form indexes with an R_(merge) of 0.094 in the monoclinic space group C2, with unit-cell parameters a = 316.6, b = 54.2, c = 114.5 Å, α = γ = 90, β = 105.1°.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1107/S1744309111007196DOIArticle
http://scripts.iucr.org/cgi-bin/paper?S1744309111007196PublisherArticle
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3087640/PubMed CentralArticle
Additional Information:© 2011 International Union of Crystallography. Received 4 November 2010; Accepted 25 February 2011. This work was supported by NIH grant R01 GM067104 with an American Recovery and Reinvestment Act supplement. We thank Jay Nix at the Advanced Light Source of Lawrence Berkeley National Laboratory for assistance with data collection, Jennifer Doudna for advice, Mark Hargrove for laboratory support and Jen Kaiser for assistance with data processing.
Funders:
Funding AgencyGrant Number
NIHR01 GM067104
American Recovery and Reinvestment Act (ARRA)UNSPECIFIED
Issue or Number:5
PubMed Central ID:PMC3087640
Record Number:CaltechAUTHORS:20160908-152227723
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20160908-152227723
Official Citation:Kraft, J. J., Hoy, J. A. & Miller, W. A. (2011). Acta Cryst. F67, 561-564.
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:70213
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:09 Sep 2016 18:25
Last Modified:03 Oct 2019 10:29

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