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Team:Freiburg Bioware/Modeling/Structure Modeling
From 2010.igem.org
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groups of five.<br> | groups of five.<br> | ||
Subsequently 15 of those pentamers are arranged in an icosahedral | Subsequently 15 of those pentamers are arranged in an icosahedral | ||
| - | + | symmetry and form the complex virus capsid where each pentamer | |
corresponds to one corner with a pore complex in the center. <br> | corresponds to one corner with a pore complex in the center. <br> | ||
<br> | <br> | ||
Structure modeling was used to simulate and visualize the capsid | Structure modeling was used to simulate and visualize the capsid | ||
| - | assembly based on X-ray | + | assembly based on X-ray crystallography data. For this purpose |
| - | cryo-frozen virus crystals were | + | cryo-frozen virus crystals were analyzed with Laue diffraction and |
| - | three dimensional structure was | + | three dimensional structure was reconstructed (Xie et al. 2002; Xie et |
al. 2003).<br> | al. 2003).<br> | ||
Based on the published data set we simulated the capsid formation in | Based on the published data set we simulated the capsid formation in | ||
Revision as of 11:54, 27 October 2010
Structure Modeling
Virus Assembly |
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The capsid assembly follows the scheme shown on the right. After transcription of plasmids coding for capsid proteins they assemble in groups of five. Subsequently 15 of those pentamers are arranged in an icosahedral symmetry and form the complex virus capsid where each pentamer corresponds to one corner with a pore complex in the center. Structure modeling was used to simulate and visualize the capsid assembly based on X-ray crystallography data. For this purpose cryo-frozen virus crystals were analyzed with Laue diffraction and three dimensional structure was reconstructed (Xie et al. 2002; Xie et al. 2003). Based on the published data set we simulated the capsid formation in PyMOD (Schrödinger 2010). The whole 3D-structure was decomposed into single proteins. Each assembly step was rendered individually finally put together to animations consisting of up to 100 images depending on the perspective. To see the resulting animation just click on the overview image on the right! |
