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Article

Tertiary Element Interaction in HIV-1 TAR.

Journal of chemical information and modeling - 26 Sept 2016

Krawczyk Konrad, Sim Adelene Y L, Knapp Bernhard, Deane Charlotte M, Minary Peter

Abstract excerpt

HIV-1 replication requires binding to occur between Trans-activation Response Element (TAR) RNA and the TAT protein. This TAR-TAT binding depends on the conformation of TAR, and therapeutic development has attempted to exploit this dynamic behavior. Here we simulate TAR dynamics in the context of mutations inhibiting TAR binding. We find that two tertiary elements, the apical loop and the bulge, can interact...

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Topics

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Share to HIV-1
Share to Models, Molecular
Share to Nucleic Acid Conformation

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Protein Binding

Share to Response Elements

Share to RNA, Viral

Share to tat Gene Products, Human Immunodeficiency Virus

Share to Virus Replication

Source

Identifiers

PMID: 27500460
DOI: 10.1021/acs.jcim.6b00152

Genes

TAT

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

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Tertiary Element Interaction in HIV-1 TAR.PMID 27500460Read ↗

The apical loop of the HIV-1 TAR RNA hairpin is stabilized by a cross-loop base pair.Semantic proximity Read ↗

Structures of complete HIV-1 TAR RNA portray a dynamic platform poised for protein binding and structural remodelingSemantic proximity Read ↗

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Detailed mutational analysis of TAR RNA: critical spacing between the bulge and loop recognition domains.Semantic proximity Read ↗

Destabilization of the TAR hairpin leads to extension of the polyA hairpin and inhibition of HIV-1 polyadenylationSemantic proximity Read ↗

Impact of subtype C-specific amino acid variants on HIV-1 Tat-TAR interaction: insights from molecular modelling and dynamicsSemantic proximity Read ↗

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