Team:ITB Indonesia/Parts

From 2014.igem.org

(Difference between revisions)
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<li>Reporter Module</li>
<li>Reporter Module</li>
<img src="https://static.igem.org/mediawiki/2014/8/8c/RepMod.JPG">
<img src="https://static.igem.org/mediawiki/2014/8/8c/RepMod.JPG">
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<p>The construction of reporter module is consist of inducible promoter PibpAB <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K339010">(BBa_K339010)</a>, RBS  <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a>, and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. BBa_K1387000 consist of RBS (Bba_B0034), amilCP (BBa_K592025) and double terminator  (BBa_B0015), while the complete module was contained in <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387001">(Bba_K!387001)</a>. The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.</p>
+
<p align="justify">The construction of reporter module is consist of inducible promoter PibpAB <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K339010">(BBa_K339010)</a>, RBS  <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a>, and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. BBa_K1387000 consist of RBS (Bba_B0034), amilCP (BBa_K592025) and double terminator  (BBa_B0015), while the complete module was contained in <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387001">(Bba_K!387001)</a>. The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.</p>
<br><li>Degradation Module</li>
<br><li>Degradation Module</li>
<img src="https://static.igem.org/mediawiki/2014/6/69/DegMod.JPG">
<img src="https://static.igem.org/mediawiki/2014/6/69/DegMod.JPG">
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<p>The casette of degradation module <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387006">(BBa_K1387006) </a> is comprised of constitutive promoter, tet operator, RBS, outer membrane protein A (ompA) fused with LC Cutinase, and double terminator. By using constitutive promoter, we expect the recombinant protein, in this case ompA-LC Cutinase, will be synthesized indefinitely. OmpA is outer membrane protein, it comprises of β–strand B3-B7. Rather than using full sequence of ompA, we use ompA (46-159) fused with lipoprotein signal sequence, thus exposing it on the cell surface of bacteria1. We fuse lpp-ompA with LC Cutinase, an enzyme that exhibit esterase activity. LC-Cutinase esterase activity will cleave the ester bond on PET and releasing terephthalic acid and ethylene glycol as a product. Fusion strategy of lpp-ompA on LC Cutinase gene is one of our way to create a whole cell biocatalyst which will be an effective molecular machinery to degrade PET on the environment. Due to constitutive expression of the recombinant protein in E.coli, there is a possibility of formation of insoluble protein inside the cell (inclusion body), because of that, we put tet operator upstream of RBS for further regulation (Georgiou et al, 1996).</p>
+
<p align="justify">The casette of degradation module <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387006">(BBa_K1387006) </a> is comprised of constitutive promoter, tet operator, RBS, outer membrane protein A (ompA) fused with LC Cutinase, and double terminator. By using constitutive promoter, we expect the recombinant protein, in this case ompA-LC Cutinase, will be synthesized indefinitely. OmpA is outer membrane protein, it comprises of β–strand B3-B7. Rather than using full sequence of ompA, we use ompA (46-159) fused with lipoprotein signal sequence, thus exposing it on the cell surface of bacteria1. We fuse lpp-ompA with LC Cutinase, an enzyme that exhibit esterase activity. LC-Cutinase esterase activity will cleave the ester bond on PET and releasing terephthalic acid and ethylene glycol as a product. Fusion strategy of lpp-ompA on LC Cutinase gene is one of our way to create a whole cell biocatalyst which will be an effective molecular machinery to degrade PET on the environment. Due to constitutive expression of the recombinant protein in E.coli, there is a possibility of formation of insoluble protein inside the cell (inclusion body), because of that, we put tet operator upstream of RBS for further regulation (Georgiou et al, 1996).</p>
<br><li>Self-Regulatory Module</li>
<br><li>Self-Regulatory Module</li>
<img src="https://static.igem.org/mediawiki/2014/b/b4/Sr1.JPG">
<img src="https://static.igem.org/mediawiki/2014/b/b4/Sr1.JPG">
-
<p>pIBPAB is a hybrid promoter that induced by inclusion body from unfunctional protein. This promoter followed by strong RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, make a new part called </p>
+
<p align="justify">pIBPAB is a hybrid promoter that induced by inclusion body from unfunctional protein. This promoter followed by strong RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, make a new part called <a style="color:#342D7E" href="http://parts.igem.org/Part:Bba_K1387005"> Bba_K1387005 </a> </p>
<img src="https://static.igem.org/mediawiki/2014/d/de/Sr2.JPG">
<img src="https://static.igem.org/mediawiki/2014/d/de/Sr2.JPG">
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<p>This casette <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_K1387002)</a> consist of TetR <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_C0040">(BBa_C0040)</a> and Double Terminator <a style="color:#342D7E"href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. TetR is tetracycline repressor that bind to operator region and repressing the expression of downstream gene. In our system, the degradation module consist of TetO (Tet Operator) which is region of TetR (Tet Repressor) placed.</p>
+
<p align="justify">This casette <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_K1387002)</a> consist of TetR <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_C0040">(BBa_C0040)</a> and Double Terminator <a style="color:#342D7E"href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. TetR is tetracycline repressor that bind to operator region and repressing the expression of downstream gene. In our system, the degradation module consist of TetO (Tet Operator) which is region of TetR (Tet Repressor) placed.</p>
<br><img src="https://static.igem.org/mediawiki/2014/f/f2/Sr3.JPG">
<br><img src="https://static.igem.org/mediawiki/2014/f/f2/Sr3.JPG">
<p>The construction of reporter module is consist of inducible promoter PibpAB <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K339010">(BBa_K339010)</a>RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a>, and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. <a style="color:#342D7E"href="hhttp://parts.igem.org/Part:BBa_K1387000"> BBa_K1387000 </a> consist of RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a> and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>, while the complete module was contained in <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387001">BBa_K1387001 </a>. The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.</p>
<p>The construction of reporter module is consist of inducible promoter PibpAB <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K339010">(BBa_K339010)</a>RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a>, and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>. <a style="color:#342D7E"href="hhttp://parts.igem.org/Part:BBa_K1387000"> BBa_K1387000 </a> consist of RBS <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0034">(BBa_B0034)</a>, amilCP <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K592025">(BBa_K592025) </a> and double terminator <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_B0015"> (Bba_B0015) </a>, while the complete module was contained in <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K1387001">BBa_K1387001 </a>. The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.</p>
<br><li>Convertion Module</li>
<br><li>Convertion Module</li>
<img src="https://static.igem.org/mediawiki/2014/7/7a/ConMod.JPG">
<img src="https://static.igem.org/mediawiki/2014/7/7a/ConMod.JPG">
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<p>Improvisation the part submitted by UC Davis team <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K936024">BBa_K936024</a> by combining the construct with terminator, so we can characterize the expression of the enzymes and performe the assay for ethylene glycol utilization better than before. We name this BioBrick as convertion module.</p>
+
<p align="justify">Improvisation the part submitted by UC Davis team <a style="color:#342D7E" href="http://parts.igem.org/Part:BBa_K936024">BBa_K936024</a> by combining the construct with terminator, so we can characterize the expression of the enzymes and performe the assay for ethylene glycol utilization better than before. We name this BioBrick as convertion module.</p>
<br><li>References</li>
<br><li>References</li>
<p>1Georgiou,G., Stephens,L., Stathopoulos,C., Poetschke,L., Mendenhall,J.,  and Earhart,F. 1996. Display of β-Lactamase on Eschericia coli Surface : Outer Membrane Phenotypes Conferred by Lpp’-ompA’- β-Lactamase Fusions. <i> Protein Engineering, 9, 239-247</i>.</p>
<p>1Georgiou,G., Stephens,L., Stathopoulos,C., Poetschke,L., Mendenhall,J.,  and Earhart,F. 1996. Display of β-Lactamase on Eschericia coli Surface : Outer Membrane Phenotypes Conferred by Lpp’-ompA’- β-Lactamase Fusions. <i> Protein Engineering, 9, 239-247</i>.</p>

Revision as of 12:21, 17 October 2014


PARTS




PARTS DESCRIPTION


  1. Reporter Module
  2. The construction of reporter module is consist of inducible promoter PibpAB (BBa_K339010), RBS (BBa_B0034), amilCP (BBa_K592025) , and double terminator (Bba_B0015) . BBa_K1387000 consist of RBS (Bba_B0034), amilCP (BBa_K592025) and double terminator (BBa_B0015), while the complete module was contained in (Bba_K!387001). The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.


  3. Degradation Module
  4. The casette of degradation module (BBa_K1387006) is comprised of constitutive promoter, tet operator, RBS, outer membrane protein A (ompA) fused with LC Cutinase, and double terminator. By using constitutive promoter, we expect the recombinant protein, in this case ompA-LC Cutinase, will be synthesized indefinitely. OmpA is outer membrane protein, it comprises of β–strand B3-B7. Rather than using full sequence of ompA, we use ompA (46-159) fused with lipoprotein signal sequence, thus exposing it on the cell surface of bacteria1. We fuse lpp-ompA with LC Cutinase, an enzyme that exhibit esterase activity. LC-Cutinase esterase activity will cleave the ester bond on PET and releasing terephthalic acid and ethylene glycol as a product. Fusion strategy of lpp-ompA on LC Cutinase gene is one of our way to create a whole cell biocatalyst which will be an effective molecular machinery to degrade PET on the environment. Due to constitutive expression of the recombinant protein in E.coli, there is a possibility of formation of insoluble protein inside the cell (inclusion body), because of that, we put tet operator upstream of RBS for further regulation (Georgiou et al, 1996).


  5. Self-Regulatory Module
  6. pIBPAB is a hybrid promoter that induced by inclusion body from unfunctional protein. This promoter followed by strong RBS (BBa_B0034), make a new part called Bba_K1387005

    This casette (BBa_K1387002) consist of TetR (BBa_C0040) and Double Terminator (Bba_B0015) . TetR is tetracycline repressor that bind to operator region and repressing the expression of downstream gene. In our system, the degradation module consist of TetO (Tet Operator) which is region of TetR (Tet Repressor) placed.


    The construction of reporter module is consist of inducible promoter PibpAB (BBa_K339010)RBS (BBa_B0034), amilCP (BBa_K592025) , and double terminator (Bba_B0015) . BBa_K1387000 consist of RBS (BBa_B0034), amilCP (BBa_K592025) and double terminator (Bba_B0015) , while the complete module was contained in BBa_K1387001 . The reporter module will have a blue chromoprotein when the inclusion body is formed in the cell. This mechanism then acts as an indicator of cytoplasmic stress, in this situation is caused by inclussion body.


  7. Convertion Module
  8. Improvisation the part submitted by UC Davis team BBa_K936024 by combining the construct with terminator, so we can characterize the expression of the enzymes and performe the assay for ethylene glycol utilization better than before. We name this BioBrick as convertion module.


  9. References
  10. 1Georgiou,G., Stephens,L., Stathopoulos,C., Poetschke,L., Mendenhall,J., and Earhart,F. 1996. Display of β-Lactamase on Eschericia coli Surface : Outer Membrane Phenotypes Conferred by Lpp’-ompA’- β-Lactamase Fusions. Protein Engineering, 9, 239-247.