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Updated: Mar 29, 2026

Assessment of Immunologically Relevant Dynamic Tertiary Structural Features of the HIV-1 V3 Loop Crown R2 Sequence by ab initio Folding
Published on: September 15, 2010
Bridging the Gap between Folding Simulations and Experiments: The Case of the Villin Headpiece
G Saladino1, M Marenchino1, F L Gervasio1
1Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre (CNIO) , c/Melchor Fernandez Almagro 3, 28029, Madrid, Spain.
Abstract:
The increasing accuracy of molecular dynamics force fields parameters and the increasing resolution of experimental results allow one to carefully compare and complement in silico data with experimental observations. Here, we study the human villin headpiece C-terminal helical subdomain (HP35) with the recent highly optimized Amber99SB*-ILDN force field and compare the results with recent high resolution triplet-triplet energy transfer (TTET) experiments. The correct reproduction of the main structural features reveals a good agreement between experimental data and simulations.
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