Document Detail


Heterogeneity of HIV-1 Rev response element.
MedLine Citation:
PMID:  12908934     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
We compiled all the RRE sequences of HIV-1 in the HIV Sequence Database and analyzed for base variation frequency at each nucleotide position. Positions with high frequency of base alteration scattered throughout the region, but primary sequences of almost all bases in stem IIA, Rev-binding bubble, and most of the stem region of stem-loop III were highly conserved. Comparing to HXB2 secondary structure, basepair-disrupting mutations did not distribute evenly in every region of the RRE. Stem I, stem IIB outside the Rev-binding site, stem IIC, and proximal parts of stem IV and V were more variable, while stem IIA, stem III, and distal parts of stem IV and V were highly conserved. These data indicated that RREs are structurally heterogeneous. The uneven distribution of variation in both primary sequence and the stem structure put forward highly conserved sites that might be more crucial to the function of RRE than the less conserved parts.
Authors:
Angsana Phuphuakrat; Prasert Auewarakul
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Publication Detail:
Type:  Comparative Study; Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  AIDS research and human retroviruses     Volume:  19     ISSN:  0889-2229     ISO Abbreviation:  AIDS Res. Hum. Retroviruses     Publication Date:  2003 Jul 
Date Detail:
Created Date:  2003-08-11     Completed Date:  2003-10-14     Revised Date:  2008-11-21    
Medline Journal Info:
Nlm Unique ID:  8709376     Medline TA:  AIDS Res Hum Retroviruses     Country:  United States    
Other Details:
Languages:  eng     Pagination:  569-74     Citation Subset:  IM; X    
Affiliation:
Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok 10700, Thailand.
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MeSH Terms
Descriptor/Qualifier:
Base Sequence
Consensus Sequence
Databases, Nucleic Acid
Genes, env*
Genetic Variation
HIV-1 / genetics*
Molecular Sequence Data
Mutation
Nucleic Acid Conformation
RNA, Viral / genetics,  ultrastructure
Chemical
Reg. No./Substance:
0/RNA, Viral

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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