Line 562: | Line 562: | ||
<div class="modelingPartContent" id="partE"> | <div class="modelingPartContent" id="partE"> | ||
<p class="content">In this step, we tried to find three peptides that have different molecular target or mechanism from filtering result to do the test experiment. The method we used was to classify the remained peptides into groups by their structure similarity.</p> | <p class="content">In this step, we tried to find three peptides that have different molecular target or mechanism from filtering result to do the test experiment. The method we used was to classify the remained peptides into groups by their structure similarity.</p> | ||
− | <p class="content">We used online | + | <p class="content">We used online analytic tools on NCBI to process those peptides.</p> |
<p class="content">We started with using Protein BLAST (Basic Local Alignment Search Tool) to search from the whole protein database for the similar query protein sequences related to all the 46 peptides and put those related peptides into groups.</p> | <p class="content">We started with using Protein BLAST (Basic Local Alignment Search Tool) to search from the whole protein database for the similar query protein sequences related to all the 46 peptides and put those related peptides into groups.</p> | ||
<p class="content">The next was using COBALT (Constraint-based Multiple Alignment Tool) to align the sequence between groups to find out whether or not the two groups have the similar structure while they were not got together on the last step because of side chains and other factors. At last, we separated 46 peptides into four groups, containing 27, 12, 3, two peptides, and two alone.</p> | <p class="content">The next was using COBALT (Constraint-based Multiple Alignment Tool) to align the sequence between groups to find out whether or not the two groups have the similar structure while they were not got together on the last step because of side chains and other factors. At last, we separated 46 peptides into four groups, containing 27, 12, 3, two peptides, and two alone.</p> |
Revision as of 15:50, 19 October 2016
![](https://static.igem.org/mediawiki/2016/0/01/NCTU_MODELING_BIG_PICTURE.png)
![](https://static.igem.org/mediawiki/2016/f/f8/Web.png)
![](https://static.igem.org/mediawiki/2016/6/65/Right_%281%29.png)