Template:Team:Bonn:NetworkData

content.text= "Regulation of protein activity is an important tool in the fields of basic research and synthetic biology[1.1]. The reason for this is that it offers a way to analyze the function of the examined protein. Furthermore the core intent of synthetic biology is the design and production of biological ‘machines’. This is usually accomplished via the modulation of protein activity[1.2].</br></br>An example for this would be the expression of a kill switch that is triggered by the presence of a certain molecule, resulting in cell death.  This example shows that protein regulation generally consists of two parts: the actual method of regulation, and the way this method is induced. In our example, the method of regulation is a rise in cytosolic protein levels and thus an overall increase of activity via an increased rate of expression. The method of induction is the presence of a certain molecule. This molecule could for example be missing in a controlled environment, so that if the organism is to leave, it automatically dies[1.2].<div class='content-image'><img src=' https://static.igem.org/mediawiki/2013/4/47/Bonn-Backgroun%28overview%29-1.jpg'></br> Image detailing the aforementioned example[1.2]</div> There are several different methods for both, actual protein regulation and the induction of this regulation. Through combination of these ‘bricks’, several methods for regulation of protein activity can be designed, each with its own advantages and disadvantages[1.2]. In order to understand the thought process we undertook in designing our own approach in regulation of protein activity, we are going to first explain these ‘bricks’ and discuss their pros and cons.</br><h3>References</h3><a href=’http://www.ncbi.nlm.nih.gov/pubmed/18272963’> [1.1] Amy B Tyszkiewicz & Tom W Muir: ‘Activation of protein splicing with light in yeast’. ‘Nature Methods’ | Vol.5 No.4 | 303 (April 2008)</a></br><a href=’http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3554958/’>[1.2] Gerd H. G. Moe-Behrens et al., ‘Preparing synthetic biology for the world’, Front Microbiol. 2013; 4: 5.</a>";

content.text= "Understanding the role of a specific gene or DNA region is one of the key challenges in modern research. Our system, which allows the <b>fast</b> and <b>convenient</b> elimination of defined proteins, is a new improved technique, with many advantages. The following table compares methods, advantages and disadvantages of several popular regulation systems.</br></br><table><tr><td><i>Regulation system</i></td><td><i>Approach of regulation</i></td><td><i>Activating / Repressing</i></td><td><i>Advantage</i></td><td><i>Disadvantage</i></td></tr><tr><td><b>Knock-In</b></td><td>Insert of DNA</td><td>Activating</td><td>Gain of function; high difference in activity</td><td>No ON/OFF system</td></tr><tr><td><b>Knock-Out</b></td><td>Deletion of DNA</td><td>Deactivating</td><td>0% Protein in organism</td><td>No ON/OFF system</td></tr><tr><td><b>Knock-Down<b></td><td>Inhibition of RNA</td><td>Repressing</td><td>Inducible</td><td>Expensive; low difference in activity</td></tr><tr><td><b>Riboswitches</b></td><td>mRNA structure; Transcription & Translation</td><td>Activating/ repressing/ degradation</td><td>Multiple aproaches and effects</td><td>Difficult to modulate<td></tr><tr><td><b>Zymogen-like</b></td><td>Protein structure</td><td>Activating</td><td>Inducible</td><td>No deactivation</td></tr><tr><td><b>Operon</b></td><td>Transcription</td><td>Inductive (substrate)/ repressing (product)</td><td>Self-regulating in organisms</td><td>Not usable for every protein</td></tr><tr><td><b>TALEs</b></td><td>Transcription</td><td>Both</td><td>Can bind several effectors</td><td>Very specific</td></tr><tr><td><b>Zinc finger</b><td>Transcription</td><td>Both</td><td>Can bind several effectors</td><td>Very specific</td></tr><tr><td><b>Direct regulation</b></td><td>Protein affinity</td><td>Both</td><td>Very fast</td><td>Too specific for easy, general use</td></tr><tr><td><b>ClpXP protease system</b></td><td>Protein degradation</td><td>&quot;Repressing&quot;</td><td>Very fast & transferable</td><td> No obvious disadvantage</td></tr></table></break></br>After comparison of various different Protein regulation mechanisms, our team decided to make use of a protein degradation system. The reason was that we wanted to create such a system was that has an immediate effect and can be used to investigate functions of <b>every</b> protein.<h2>References:</h2>see following articles";