TY - JOUR
AU - Grice, Stuart F. J. Le
AB - Interaction between the viral protein Rev and the RNA motifs known as Rev response elements (RREs) is required for transport of unspliced and partially spliced human immunodeficiency virus (HIV)-1 and HIV-2 RNAs from the nucleus to the cytoplasm during the later stages of virus replication. A more detailed understanding of these nucleoprotein complexes and the host factors with which they interact should accelerate the development of new antiviral drugs targeting cis-acting RNA regulatory signals. In this communication, the secondary structures of the HIV-2 RRE and two RNA folding precursors have been identified using the SHAPE (selective 2-hydroxyl acylation analyzed by primer extension) chemical probing methodology together with a novel mathematical approach for determining the secondary structures of RNA conformers present in a mixture. A complementary chemical probing technique was also used to support these secondary structure models, to confirm that the RRE2 RNA undergoes a folding transition and to obtain information about the relative positioning of RRE2 substructures in three dimensions. Our analysis collectively suggests that the HIV-2 RRE undergoes two conformational transitions before assuming the energetically most favorable conformer. The 3D models for the HIV-2 RRE and folding intermediates are also presented, wherein the Rev-binding stemloops (IIB and I) are located coaxially in the former, which is in agreement with previous models for HIV-1 Rev-RRE binding.
TI - The HIV-2 Rev-response element: determining secondary structure and defining folding intermediates
JF - Nucleic Acids Research
DO - 10.1093/nar/gkt353
DA - 2013-07-02
UR - https://www.deepdyve.com/lp/oxford-university-press/the-hiv-2-rev-response-element-determining-secondary-structure-and-Cxx0kFCH3U
SP - 6637
EP - 6649
VL - 41
IS - 13
DP - DeepDyve
ER -