HIV-2 RNA dimerization is regulated by intramolecular interactions in vitro
Open Access
- 25 June 2007
- journal article
- Published by Cold Spring Harbor Laboratory in RNA
- Vol. 13 (8), 1341-1354
- https://doi.org/10.1261/rna.483807
Abstract
Genomic RNA dimerization is an essential process in the retroviral replication cycle. In vitro, HIV-2 RNA dimerization is mediated at least in part by direct intermolecular interaction at stem–loop 1 (SL1) within the 5′-untranslated leader region (UTR). RNA dimerization is thought to be regulated via alternate presentation and sequestration of dimerization signals by intramolecular base-pairings. One of the proposed regulatory elements is a palindrome sequence (pal) located upstream of SL1. To investigate the role of pal in the regulation of HIV-2 dimerization, we randomized this motif and selected in vitro for dimerization-competent and dimerization-impaired RNAs. Energy minimization folding analysis of these isolated sequences suggests the involvement of pal region in several short-distance intramolecular interactions with other upstream and downstream regions of the UTR. Moreover, the consensus predicted folding patterns indicate the altered presentation of SL1 depending on the interactions of pal with other regions of RNA. The data suggest that pal can act as a positive or negative regulator of SL1-mediated dimerization and that the modulation of base-pairing arrangements that affect RNA dimerization could coordinate multiple signals located within the 5′-UTR.Keywords
This publication has 61 references indexed in Scilit:
- An Extended Stem-Loop 1 Is Necessary for Human Immunodeficiency Virus Type 2 Replication and Affects Genomic RNA EncapsidationJournal of Virology, 2007
- Nucleocapsid protein-mediated maturation of dimer initiation complex of full-length SL1 stemloop of HIV-1: sequence effects and mechanism of RNA refoldingNucleic Acids Research, 2007
- How retroviruses select their genomesNature Reviews Microbiology, 2005
- Nonrandom Dimerization of Murine Leukemia Virus Genomic RNAsJournal of Virology, 2004
- A Riboswitch Regulates RNA Dimerization and Packaging in Human Immunodeficiency Virus Type 1 VirionsJournal of Virology, 2004
- Structural basis for packaging the dimeric genome of Moloney murine leukaemia virusNature, 2004
- Dimerization of retroviral RNA genomes: an inseparable pairNature Reviews Microbiology, 2004
- Multiple Secondary Structure Rearrangements during HIV-1 RNA DimerizationBiochemistry, 2002
- The Major Human Immunodeficiency Virus Type 2 (HIV-2) Packaging Signal Is Present on All HIV-2 RNA Species: Cotranslational RNA Encapsidation and Limitation of Gag Protein Confer SpecificityJournal of Virology, 2001
- Amplification, mutation and selection of catalytic RNAGene, 1989