Team:UST Beijing/Modeling

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                 <li><a href="https://2014.igem.org/Team:UST_Beijing/Project">Project</a></li>
                 <li><a href="https://2014.igem.org/Team:UST_Beijing/Project">Project</a></li>
                 <li><a href="https://2014.igem.org/Team:UST_Beijing/Parts">Parts</a></li>
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                 <li><a href="https://2014.igem.org/Team:UST_Beijing/Modeling">Modeling</a></li>
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                 <li class="active" ><a href="https://2014.igem.org/Team:UST_Beijing/Modeling">Modeling</a></li>
                 <li><a href="https://2014.igem.org/Team:UST_Beijing/Outreach">Outreach</a></li>
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                   <a href="#notebook" class="dropdown-toggle" data-toggle="dropdown">Notebook <span class="caret"></span></a>
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         <h2 class="bs-docs-featurette-title">See the Magic</h2>
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         <h2 class="bs-docs-featurette-title">See the magic.</h2>
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         <p class="lead">We translated synthetic GLO gene into protein, then uploaded the primary structure onto SWISS-Model website for 3D structure construction, which was displayed below.</p>
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         <p class="lead">Synthetic GLO gene was translated into protein, then the primary structure of which was uploaded onto SWISS-Model website for 3D structure construction.</p>
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<p align="left" id="sticksCarouselMessage">Next the constructed 3D model was loaded into Chimera 8.1 and prepared. FAD was docked into model using auto dock vina; next pre-vitamin C, vitamin C and xylitol was individually docked into the catalytic site with FAD in situ. The table below shows the relative binding affinity of each putative substrate. The 3D model was calculated according to xylitol oxidase crystal structure (PDB code 2vfs). The result suggests that the 3D model was nearly accurate enough to distringuish putative substrates.</p>
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   <img id="modelform" align="center" src="https://static.igem.org/mediawiki/2014/d/d7/Modelform.JPG"></img>
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  <p align="left" id="sticksCarouselMessage">Next the constructed 3D model was loaded into Chimera 8.1 and prepared. FAD was docked into model using auto dock vina; next pre-vitamin C, vitamin C and xylitol was individually docked into the catalytic site with FAD in situ. The table above shows the relative binding affinity of each putative substrate. The 3D model was calculated according to xylitol oxidase crystal structure (PDB code 2vfs). The result suggests that the 3D model was nearly accurate enough to distringuish putative substrates.</p>
 

Latest revision as of 02:20, 17 October 2014

USTB iGEM14 Modeling

See the magic.

Synthetic GLO gene was translated into protein, then the primary structure of which was uploaded onto SWISS-Model website for 3D structure construction.

Next the constructed 3D model was loaded into Chimera 8.1 and prepared. FAD was docked into model using auto dock vina; next pre-vitamin C, vitamin C and xylitol was individually docked into the catalytic site with FAD in situ. The table below shows the relative binding affinity of each putative substrate. The 3D model was calculated according to xylitol oxidase crystal structure (PDB code 2vfs). The result suggests that the 3D model was nearly accurate enough to distringuish putative substrates.

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