File:Observing-the-overall-rocking-motion-of-a-protein-in-a-crystal-ncomms9361-s2.ogv
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editDescriptionObserving-the-overall-rocking-motion-of-a-protein-in-a-crystal-ncomms9361-s2.ogv |
English: Supplementary Movie 1 Illustration of rigid-body motion of ubiquitin in MPD-ub crystals from MD simulation. The movie features a "typical" protein molecule in the sense of Figure 4. Specifically, the rocking correlation function is closest to the average rocking correlation functions, with minimum rms deviation between the two. The correlation functions classified as outliers (green curves in Figure 4) have been excluded from consideration. To generate the frames, a rigid protein structure (1UBQ) has been superimposed onto the instantaneous coordinates of the selected ubiquitin molecule in the MD trajectory (via Cα atoms in the secondary structure). The sequence of the frames, therefore, represents instantaneous orientations of the rigid-body ubiquitin molecule; the internal dynamics and translational motions have been removed. The movie covers the entire length of each trajectory, which is 1 us, and are sampled at 1 ns interval. The perspective used in this movie is identical to the one in the other two movies (obtained via the appropriate crystal symmetry transformations). |
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Source | Video file from Ma P, Xue Y, Coquelle N, Haller J, Yuwen T, Ayala I, Mikhailovskii O, Willbold D, Colletier J, Skrynnikov N, Schanda P (2015). "Observing the overall rocking motion of a protein in a crystal". Nature Communications. DOI:10.1038/ncomms9361. PMID 26436197. PMC: 4600728. | ||
Author | Ma P, Xue Y, Coquelle N, Haller J, Yuwen T, Ayala I, Mikhailovskii O, Willbold D, Colletier J, Skrynnikov N, Schanda P | ||
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![]() ![]() This file is licensed under the Creative Commons Attribution 4.0 International license.
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current | 22:31, 30 October 2016 | 20 s, 336 × 336 (8.56 MB) | Open Access Media Importer Bot (talk | contribs) | Automatically uploaded media file from Open Access source. Please report problems or suggestions here. |
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Short title | Supplementary Movie 1 |
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Author | Ma P, Xue Y, Coquelle N, Haller J, Yuwen T, Ayala I, Mikhailovskii O, Willbold D, Colletier J, Skrynnikov N, Schanda P |
Usage terms | http://creativecommons.org/licenses/by/4.0/ |
Image title | Illustration of rigid-body motion of ubiquitin in MPD-ub crystals from MD simulation. The movie features a "typical" protein molecule in the sense of Figure 4. Specifically, the rocking correlation function is closest to the average rocking correlation functions, with minimum rms deviation between the two. The correlation functions classified as outliers (green curves in Figure 4) have been excluded from consideration. To generate the frames, a rigid protein structure (1UBQ) has been superimposed onto the instantaneous coordinates of the selected ubiquitin molecule in the MD trajectory (via Cα atoms in the secondary structure). The sequence of the frames, therefore, represents instantaneous orientations of the rigid-body ubiquitin molecule; the internal dynamics and translational motions have been removed. The movie covers the entire length of each trajectory, which is 1 us, and are sampled at 1 ns interval. The perspective used in this movie is identical to the one in the other two movies (obtained via the appropriate crystal symmetry transformations). |
Software used | Xiph.Org libtheora 1.1 20090822 (Thusnelda) |
Date and time of digitizing | 2015-10-05 |