Published February 14, 2020
| Version v1
Dataset
Open
Dataset for: Molecular Dynamics study of the Recognition of the Nucleic Acid Aptamer to ATP
Authors/Creators
- 1. School of chemistry and chemical engineering, Beijing institute of technology, Beijing, China
- 2. Department of chemistry and molecular biology, University of Gothenburg, Göteborg, Sweden
Description
Files with the initial aptamer structures (wt and three mutant forms) and their complexes with ATP after docking, used in the MD simulations, along with MD simulation trajectories and meta-eABF simulations, are included as tarballs (.tar.gz).
Mutant structures were generated using PyMol, ATP docking performed using AutoDock Vina, and MD simulations based on NAMD software and Charmm36 and CGenFF force fields.
Notes
Funding by Swedish research council (VR), grant no. 2019-3684 (LAE).
Files
Files
(11.4 GB)
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md5:fce40b6e87d5ba319b4a749473b1e27e
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1.1 MB | Download |
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709.1 kB | Download |
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791.8 kB | Download |
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1.3 MB | Download |
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778.3 kB | Download |
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717.5 kB | Download |
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107.7 MB | Download |
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md5:97beefb308e2efc965055b4345dc64fc
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781.5 MB | Download |
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md5:cdf09dc9d0b2c2d1bb4173ea841cda89
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1.1 GB | Download |
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md5:15498b36b5d9d7e41f8bbe242cf8ab9f
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1.3 GB | Download |
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md5:c0de5274346ac046d9ad4199b9468fa2
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1.2 GB | Download |
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md5:d30444913a9f22b904cc3345ceb99fae
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196.0 MB | Download |
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md5:0cb41e5ff805410993a62d2c8f6ce1de
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107.7 MB | Download |
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md5:8317c4ed05b0c1b5e43ceffaa6e2ebad
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322.4 MB | Download |
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md5:235808783d2b6559c6aa44d8334dd232
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941.0 MB | Download |
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md5:7ce5fa3822d96890046a9b2441661511
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1.9 GB | Download |
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md5:0b0cf99384ffd5e37544a5f537b24d03
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314.8 MB | Download |
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md5:442245305928420eae96007c942fb090
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73.3 MB | Download |
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md5:d809dd719b60d27c7b678183b2c21545
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581.8 MB | Download |
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md5:16615a7bba8990c0d5fab2badf86dec2
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393.0 MB | Download |
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md5:bf7dddd032f88bbfddfe992684c38bfe
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392.8 MB | Download |
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md5:a909faae8856dd8d6aa41ed3b4387555
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393.2 MB | Download |
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md5:8a542aa80ab77df6da70afac5fee1bce
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478.4 MB | Download |
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md5:28d2df3ba3b6578e1d85a054998c81ad
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517.0 MB | Download |
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md5:41ba01106b7dc86bae2258034f9c49e9
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403.7 MB | Download |