Influence of naturally occuring insertions in the fingers subdomain of human immunodeficiency virus type 1 reverse transcriptase on polymerase fidelity and mutation frequencies in vitro

Kenneth Curr, Snehlata Tripathi, Johan Lennerstrand, Brendan A. Larder, Vinayaka R. Prasad

Research output: Contribution to journalArticle

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Abstract

The fingers subdomain of human immunodeficiency virus type 1 (HIV-1) reverse transcriptase (RT) is a hotspot for nucleoside analogue resistance mutations. Some multi-nucleoside analogue-resistant variants contain a T69S substitution along with clipepticle insertions between residues 69 and 70. This set of mutations usually co-exists with classic ziclovudine-resistance mutations (e.g. M41 L and T215Y) or an A62V mutation and confers resistance to multiple nucleoside analogue inhibitors. As insertions lie in the vicinity of the dNTP-binding pocket, their influence on RT fidelity was investigated, Commonly occurring insertion mutations were selected, i.e. T69S-AG, T69S-SG and T69S-SS alone, in combination with 3′-azido-2′,3′-deoxythymidine-resistance mutations M41 L, L210W, R21 1K, L214F, T215Y (LAGAZ and LSGAz) or with an alternate set where A62V substitution replaces M41 L (VAGAZ, VSGAZ and VSSAZ). Using a lacZα gapped duplex substrate, the forward mutation frequencies of recombinant wild-type and mutant RTs bearing each of the above sets of mutations were measured. All of the mutants displayed significant decreases in mutation frequencies. Whereas the dipeptide insertions alone showed the least decrease (4·0- to 7·5-fold), the VAG series showed an intermediate reduction (5·0- to 11·-4-fold) and the LAG set showed the largest reduction in mutation frequencies (15·3- and 16·3-fold for LAGAZ and LSGAZ, respectively). Single dNTP exclusion assays for mutants LSGAZ and LAGAZ confirmed their large reduction in misincorporation efficiencies. The increased in vitro fidelity was not due to excision of the incorrect nucleoticle via ATP-dependent removal. There was also no direct correlation between increased fidelity and template-primer affinity, suggesting a change in the active site that is conducive to better discrimination during dNTP insertion.

Original languageEnglish (US)
Pages (from-to)419-428
Number of pages10
JournalJournal of General Virology
Volume87
Issue number2
DOIs
StatePublished - Feb 2006

Fingerprint

Mutation Rate
Fingers
HIV-1
Mutation
Nucleosides
Zidovudine
Dipeptides
Insertional Mutagenesis
RNA-Directed DNA Polymerase
Thymidine
Human immunodeficiency virus 1 reverse transcriptase
In Vitro Techniques
Catalytic Domain
Adenosine Triphosphate

ASJC Scopus subject areas

  • Virology
  • Immunology

Cite this

Influence of naturally occuring insertions in the fingers subdomain of human immunodeficiency virus type 1 reverse transcriptase on polymerase fidelity and mutation frequencies in vitro. / Curr, Kenneth; Tripathi, Snehlata; Lennerstrand, Johan; Larder, Brendan A.; Prasad, Vinayaka R.

In: Journal of General Virology, Vol. 87, No. 2, 02.2006, p. 419-428.

Research output: Contribution to journalArticle

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abstract = "The fingers subdomain of human immunodeficiency virus type 1 (HIV-1) reverse transcriptase (RT) is a hotspot for nucleoside analogue resistance mutations. Some multi-nucleoside analogue-resistant variants contain a T69S substitution along with clipepticle insertions between residues 69 and 70. This set of mutations usually co-exists with classic ziclovudine-resistance mutations (e.g. M41 L and T215Y) or an A62V mutation and confers resistance to multiple nucleoside analogue inhibitors. As insertions lie in the vicinity of the dNTP-binding pocket, their influence on RT fidelity was investigated, Commonly occurring insertion mutations were selected, i.e. T69S-AG, T69S-SG and T69S-SS alone, in combination with 3′-azido-2′,3′-deoxythymidine-resistance mutations M41 L, L210W, R21 1K, L214F, T215Y (LAGAZ and LSGAz) or with an alternate set where A62V substitution replaces M41 L (VAGAZ, VSGAZ and VSSAZ). Using a lacZα gapped duplex substrate, the forward mutation frequencies of recombinant wild-type and mutant RTs bearing each of the above sets of mutations were measured. All of the mutants displayed significant decreases in mutation frequencies. Whereas the dipeptide insertions alone showed the least decrease (4·0- to 7·5-fold), the VAG series showed an intermediate reduction (5·0- to 11·-4-fold) and the LAG set showed the largest reduction in mutation frequencies (15·3- and 16·3-fold for LAGAZ and LSGAZ, respectively). Single dNTP exclusion assays for mutants LSGAZ and LAGAZ confirmed their large reduction in misincorporation efficiencies. The increased in vitro fidelity was not due to excision of the incorrect nucleoticle via ATP-dependent removal. There was also no direct correlation between increased fidelity and template-primer affinity, suggesting a change in the active site that is conducive to better discrimination during dNTP insertion.",
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