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Comprehensive chemical modification interference and nucleotide substitution analysis of an RNA pseudoknot inhibitor to HIV-1 reverse transcriptase.

Abstract：

:We had previously used in vitro RNA selection techniques to describe a consensus RNA pseudoknot that binds and inhibits HIV-1 reverse transcriptase (HIV-RT). In this work we constructed variants of this consensus pseudoknot in order to evaluate the contributions of individual nucleotide identities and secondary structure to affinity for HIV-RT. We have also used chemical modification of ligand RNAs to corroborate the predicted structure of the pseudoknot, to discover which modifiable groups are protected from chemical attack when bound to HIV-RT, and to find which modifications interfere with binding to HIV-RT. A novel interference study is presented which involves selection of ligands from a pool created by mixed reagent oligonucleotide synthesis in order to rapidly determine allowed substitutions of 2'-OCH3 groups for the usual 2'-OH group in such RNA ligands.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Green L,Waugh S,Binkley JP,Hostomska Z,Hostomsky Z,Tuerk C

doi

10.1006/jmbi.1994.0122

subject

Has Abstract

pub_date

1995-03-17 00:00:00

pages

60-8

issue

1

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(84)70122-7

journal_volume

247

pub_type

杂志文章

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