Difference between revisions of "Team:Bielefeld-CeBiTec/Results/toolbox/fusing"

(created page)
 
Line 4: Line 4:
 
<body>
 
<body>
 
<div class="container">
 
<div class="container">
 +
<div class="contentbox">
 +
<div class="bevel tr"></div>
 +
<div class="content">
  
 +
<!-- Ueberschriften -->
 +
<h2> Fusing</h2>
 +
        </div>
 +
        </div>
 +
</div>
 +
<div class="contentbox">
 +
<div class="bevel tr"></div>
 +
<div class="content">
 +
 +
<h3> Synthesis of N<sup>ε</sup>-L-cysteinyl-L-lysine </h3>
 +
 +
 +
<!-- Normaler Text -->
 +
<article>
 +
We used a modified version of the method of Nguyen et al. (2011) to produce N<sup>ε</sup>-L-cysteinyl-L-lysine. To ensure a specific reaction between the amino group of the side chain of lysine (see figure 1) and the hydroxide group of cysteine (see figure 1) in a directed manner, so called protecting groups are introduced. Commonly used groups are tert-butyloxycarbonyl (Boc), methyl ester and triphenylmethane (Trt). They bind reversible to the corresponding groups and can be easily removed by acids and bases after the specific reaction happened. The first step of the synthesis is a coupling reaction of N-Boc-L-lysine-O-methyl ester and N Boc L cysteine-S-Trt. Due to the protected functional groups, only the unprotected amino group of N-Boc-L-lysine-O-methyl ester and the unprotected hydroxide group of the N Boc L cysteine-S-Trt can react with each other. The result is N-Boc-L-lysine[N<sup>ε</sup>-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester. After removing the protecting groups with lithium oxide, triethylsilane and fluoroacetic acid Nε-L-cysteinyl-L-lysine trifluoroacetic acid salt is left. Figure 1 shows the schematic reaction.
 +
</article>
 +
 +
<!-- Mittleres zentriertes Bild -->
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/c/cc/T--Bielefeld-CeBiTec--27-08-17-CL_CBT-Asp_sync.png">
 +
<p class="figure subtitle"><b>Figure 1: Schematic reaction of the synthesis of Nε-L-cysteinyl-L-lysine fluoroacetatic acid salt (Nguyen et al., 2011).</b><br> The unprotected hydroxide group of the cysteine (red) and the unprotected amino group of the lysine (green) are highlighted.</p>
 +
</div>
 +
 +
<!-- Normaler Text -->
 +
<article>
 +
We synthesized N<sup>ε</sup>-L-cysteinyl-L-lysine in two batches to ensure that the method of Nguyen et al. (2001) is successful. For the first batch, we used dry dimethylformamide (DMF) as solvent for the coupling reaction as described by Nguyen et al. (2011). Due to low yield using DMF compared to Nguyen et al., we used less reactive tetrahydrofuran (THF) for the second batch.
 +
 +
</article>
 +
        </div>
 +
<div class="bevel bl"></div>
 +
        </div>
 +
</div>
 +
 +
 +
 +
<div class="contentbox">
 +
<div class="bevel tr"></div>
 +
<div class="content">
 +
 +
<h3>Coupling reaction of N-Boc-L-lysine-O-methyl ester and N-Boc-L-cysteine-S-Trt</h3>
 +
 +
<!-- Normaler Text -->
 +
<article>
 +
Table 1 shows the used quantity of reactants and solvents for both batches.
 +
<br>
 +
<br>
 +
<b>Table 1 List of used reactants and solvents for the coupling.</b>
 +
<br>
 +
In both batches, we used the same quantity of reactants and solvents for the coupling reaction.
 +
</article>
 +
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/7/77/T--Bielefeld-CeBiTec--27-08-17-results_Tab1_coupling_reaction.png">
 +
<p class="figure subtitle"><b> </b></p>
 +
</div>
 +
<!-- 1-Drittel Div + 2-Drittel Div - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="third">
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/b/be/T--Bielefeld-CeBiTec--27-08-17-TLC_CL1.jpg">
 +
<p class="figure subtitle"><b>Figure 2 Result of the TLC analysis after the coupling reaction.</b><br>A: N-Boc-L-lysine-O-methyl ester; B: N Boc L cysteine-S-Trt; C: N-Boc-L-lysine-O-methyl ester, N Boc L cysteine-S-Trt and the reaction mixture after the coupling reaction; D: the reaction mixture after the coupling reaction.</p>
 +
</div>
 +
 +
</div>
 +
<div class="third double">
 +
<article>
 +
The thin layer chromatography (TLC) analysis of the reaction mixture shows that after the coupling reaction no N-Boc-L-lysine-O-methyl ester was left (see figure 2). This indicates that the N-Boc-L-lysine-O-methyl ester completely reacted. The two spots on the top of C and D are the product – the N-Boc-L-lysine[N<sup>ε</sup>-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester (lower spot) – and a byproduct of the reaction (upper spot).
 +
 +
</article>
 +
 +
</div>
 +
</div>
 +
 +
 +
<!-- Grosses zentriertes Bild -->
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/8/8c/T--Bielefeld-CeBiTec--27-08-17-NMR_CL-CBT-Asp1.png">
 +
<p class="figure subtitle"><b>Figure 3: Nuclear magnetic resonance (NMR) analysis result for the purified reaction mixture after the coupling reaction.</b><br> The signals for the hydrogen bonds of the protecting groups were highlighted because they are characteristic for the estimated product – N-Boc-L-lysine[N<sup>ε</sup>-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.</p>
 +
</div>
 +
<article>
 +
The NMR analysis of the purified reaction mixture of the coupling reaction shows that the hydrogen atoms of all protecting groups are present (see figure 3). The Tritylphenylmethane (Trt) at 7.2 ppm is part of the N-Boc-L-cysteine-S-Trt and the methyl ester at 3.6 ppm is originating from the N-Boc-L-lysine-O-methyl ester. The tert-Butyloxycarbonyl protecting group is part of both educts. In this reaction, should be no protecting groups split off so that you can see here the NMR analysis for N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.
 +
 +
</article>
 +
<!-- ------------------------------------------------------------------------------------- -->
 +
 +
<h3>Removing the methyl ester of the N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester</h3>
 +
 +
<!-- Normaler Text -->
 +
<article>
 +
Table 2 shows the used quantity of reactants and solvents for both batches.
 +
<br>
 +
<br>
 +
<b>Table 2 List of used reactants and solvents for the reaction to remove methyl ester of the first and the second batch.</b>
 +
</article>
 +
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/7/77/T--Bielefeld-CeBiTec--27-08-17-results_Tab1_coupling_reaction.png">
 +
<p class="figure subtitle"><b> </b></p>
 +
</div>
 +
<!-- 1-Drittel Div + 2-Drittel Div - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="third">
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/b/be/T--Bielefeld-CeBiTec--27-08-17-TLC_CL1.jpg">
 +
<p class="figure subtitle"><b>Figure 2 Result of the TLC analysis after the coupling reaction.</b><br>A: N-Boc-L-lysine-O-methyl ester; B: N Boc L cysteine-S-Trt; C: N-Boc-L-lysine-O-methyl ester, N Boc L cysteine-S-Trt and the reaction mixture after the coupling reaction; D: the reaction mixture after the coupling reaction.</p>
 +
</div>
 +
 +
</div>
 +
<div class="third double">
 +
<article>
 +
The thin layer chromatography (TLC) analysis of the reaction mixture shows that after the coupling reaction no N-Boc-L-lysine-O-methyl ester was left (see figure 2). This indicates that the N-Boc-L-lysine-O-methyl ester completely reacted. The two spots on the top of C and D are the product – the N-Boc-L-lysine[N<sup>ε</sup>-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester (lower spot) – and a byproduct of the reaction (upper spot).
 +
 +
</article>
 +
 +
</div>
 +
</div>
 +
 +
 +
<!-- Grosses zentriertes Bild -->
 +
<div class="figure large">
 +
<img class="figure image" src="https://static.igem.org/mediawiki/2017/8/8c/T--Bielefeld-CeBiTec--27-08-17-NMR_CL-CBT-Asp1.png">
 +
<p class="figure subtitle"><b>Figure 3: Nuclear magnetic resonance (NMR) analysis result for the purified reaction mixture after the coupling reaction.</b><br> The signals for the hydrogen bonds of the protecting groups were highlighted because they are characteristic for the estimated product – N-Boc-L-lysine[N<sup>ε</sup>-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.</p>
 +
</div>
 +
<article>
 +
The NMR analysis of the purified reaction mixture of the coupling reaction shows that the hydrogen atoms of all protecting groups are present (see figure 3). The Tritylphenylmethane (Trt) at 7.2 ppm is part of the N-Boc-L-cysteine-S-Trt and the methyl ester at 3.6 ppm is originating from the N-Boc-L-lysine-O-methyl ester. The tert-Butyloxycarbonyl protecting group is part of both educts. In this reaction, should be no protecting groups split off so that you can see here the NMR analysis for N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.
 +
 +
</article>
 +
 +
<!-- Zwei Divs nebeneinander - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="half left">
 +
 +
</div>
 +
<div class="half right">
 +
 +
</div>
 +
</div>
 +
 +
 +
<!-- Drei Divs nebeneinander - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="third">
 +
 +
</div>
 +
<div class="third">
 +
 +
</div>
 +
<div class="third">
 +
 +
</div>
 +
</div>
 +
 +
 +
<!-- 1-Drittel Div + 2-Drittel Div - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="third">
 +
 +
</div>
 +
<div class="third double">
 +
 +
</div>
 +
</div>
 +
 +
 +
<!-- 2-Drittel Div + 1-Drittel Div - Hier kann man Bilder oder articles einfuegen -->
 +
<div class="contentline">
 +
<div class="third double">
 +
 +
</div>
 +
<div class="third">
 +
 +
</div>
 +
</div>
 +
 +
 +
</div>
 +
<div class="bevel bl"></div>
 +
</div>
 
</div>
 
</div>
 
</body>
 
</body>
 
</html>
 
</html>
 
{{Team:Bielefeld-CeBiTec/Footer}}
 
{{Team:Bielefeld-CeBiTec/Footer}}

Revision as of 01:55, 27 August 2017

Fusing

Synthesis of Nε-L-cysteinyl-L-lysine

We used a modified version of the method of Nguyen et al. (2011) to produce Nε-L-cysteinyl-L-lysine. To ensure a specific reaction between the amino group of the side chain of lysine (see figure 1) and the hydroxide group of cysteine (see figure 1) in a directed manner, so called protecting groups are introduced. Commonly used groups are tert-butyloxycarbonyl (Boc), methyl ester and triphenylmethane (Trt). They bind reversible to the corresponding groups and can be easily removed by acids and bases after the specific reaction happened. The first step of the synthesis is a coupling reaction of N-Boc-L-lysine-O-methyl ester and N Boc L cysteine-S-Trt. Due to the protected functional groups, only the unprotected amino group of N-Boc-L-lysine-O-methyl ester and the unprotected hydroxide group of the N Boc L cysteine-S-Trt can react with each other. The result is N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester. After removing the protecting groups with lithium oxide, triethylsilane and fluoroacetic acid Nε-L-cysteinyl-L-lysine trifluoroacetic acid salt is left. Figure 1 shows the schematic reaction.

Figure 1: Schematic reaction of the synthesis of Nε-L-cysteinyl-L-lysine fluoroacetatic acid salt (Nguyen et al., 2011).
The unprotected hydroxide group of the cysteine (red) and the unprotected amino group of the lysine (green) are highlighted.

We synthesized Nε-L-cysteinyl-L-lysine in two batches to ensure that the method of Nguyen et al. (2001) is successful. For the first batch, we used dry dimethylformamide (DMF) as solvent for the coupling reaction as described by Nguyen et al. (2011). Due to low yield using DMF compared to Nguyen et al., we used less reactive tetrahydrofuran (THF) for the second batch.

Coupling reaction of N-Boc-L-lysine-O-methyl ester and N-Boc-L-cysteine-S-Trt

Table 1 shows the used quantity of reactants and solvents for both batches.

Table 1 List of used reactants and solvents for the coupling.
In both batches, we used the same quantity of reactants and solvents for the coupling reaction.

Figure 2 Result of the TLC analysis after the coupling reaction.
A: N-Boc-L-lysine-O-methyl ester; B: N Boc L cysteine-S-Trt; C: N-Boc-L-lysine-O-methyl ester, N Boc L cysteine-S-Trt and the reaction mixture after the coupling reaction; D: the reaction mixture after the coupling reaction.

The thin layer chromatography (TLC) analysis of the reaction mixture shows that after the coupling reaction no N-Boc-L-lysine-O-methyl ester was left (see figure 2). This indicates that the N-Boc-L-lysine-O-methyl ester completely reacted. The two spots on the top of C and D are the product – the N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester (lower spot) – and a byproduct of the reaction (upper spot).

Figure 3: Nuclear magnetic resonance (NMR) analysis result for the purified reaction mixture after the coupling reaction.
The signals for the hydrogen bonds of the protecting groups were highlighted because they are characteristic for the estimated product – N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.

The NMR analysis of the purified reaction mixture of the coupling reaction shows that the hydrogen atoms of all protecting groups are present (see figure 3). The Tritylphenylmethane (Trt) at 7.2 ppm is part of the N-Boc-L-cysteine-S-Trt and the methyl ester at 3.6 ppm is originating from the N-Boc-L-lysine-O-methyl ester. The tert-Butyloxycarbonyl protecting group is part of both educts. In this reaction, should be no protecting groups split off so that you can see here the NMR analysis for N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.

Removing the methyl ester of the N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester

Table 2 shows the used quantity of reactants and solvents for both batches.

Table 2 List of used reactants and solvents for the reaction to remove methyl ester of the first and the second batch.

Figure 2 Result of the TLC analysis after the coupling reaction.
A: N-Boc-L-lysine-O-methyl ester; B: N Boc L cysteine-S-Trt; C: N-Boc-L-lysine-O-methyl ester, N Boc L cysteine-S-Trt and the reaction mixture after the coupling reaction; D: the reaction mixture after the coupling reaction.

The thin layer chromatography (TLC) analysis of the reaction mixture shows that after the coupling reaction no N-Boc-L-lysine-O-methyl ester was left (see figure 2). This indicates that the N-Boc-L-lysine-O-methyl ester completely reacted. The two spots on the top of C and D are the product – the N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester (lower spot) – and a byproduct of the reaction (upper spot).

Figure 3: Nuclear magnetic resonance (NMR) analysis result for the purified reaction mixture after the coupling reaction.
The signals for the hydrogen bonds of the protecting groups were highlighted because they are characteristic for the estimated product – N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.

The NMR analysis of the purified reaction mixture of the coupling reaction shows that the hydrogen atoms of all protecting groups are present (see figure 3). The Tritylphenylmethane (Trt) at 7.2 ppm is part of the N-Boc-L-cysteine-S-Trt and the methyl ester at 3.6 ppm is originating from the N-Boc-L-lysine-O-methyl ester. The tert-Butyloxycarbonyl protecting group is part of both educts. In this reaction, should be no protecting groups split off so that you can see here the NMR analysis for N-Boc-L-lysine[Nε-(N-Boc-L-cysteine-S-Trt)]-6-methyl ester.