Team:UANL Mty-Mexico/Contributions/Parts

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Revision as of 00:58, 29 September 2011

Team: UANL_Mty-Mexico Team: UANL_Mty-Mexico

Contributions: Parts

Parts

Part name	Description	Favorited
BBa_K566000	OL region from Lambda phage allows biphasic switch (K566002) effective repression: When placed around 2.4 kb apart from OR (included in pRM) and in high [cI] conditions, cI octamerizes and loops the DNA stabilizing cI binding to OR3; such structure represses pRM promoter (K566001).
BBa_K566001	pRM promoter from Lambda phage. It may be positively and negatively regulated according to cI protein concentration. Low [cI] induce it, high [cI] repress it. It needs OL region (K566000) for effective repression. Makes the biphasic switch (K566002) together with OL region.
BBa_K566002	The Biphasic Switch combines positive and negative regulation through a single input. It is turned ON by low lambda cI concentrations and OFF by high cI concentrations.
BBa_K566003	*CFP optimized for E. coli.* Cyan fluorescent protein optimized from part BBa_E0022 with preferential codon usage for improved expression in E. coli. It is a monomeric protein generated on the basis of GFP-like protein from jellyfish Aequorea victoria . It possesses bright fluorescence with exitation/emission maxima at 434 and 477 nm, respectively. It has an extinction coefficient of 26,000 M-1 cm-1.
BBa_K566004	Protein generator of cyan fluorescent protein without transcription terminator. It may be negatively regulated by Mnt repressor (BBa_C0072).
BBa_K566005	pCpcG2 promoter (Green light inducible). Green light inducible pCpcG2 promoter from pJT122 plasmid constructed by Tabor et al. (2010). It is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light. Light intensities must be carefully regulated to achieve successful gene expression.
BBa_K566006	penI-pCpcG2-pPenI-mnt. Repression-based potential AND gate. Mnt Repressor is under the control of the PenI repressible promoter. PenI repressor is placed under the control of green light inducible pCpcG2 promoter. pCpcG2 promoter is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light.
BBa_K566007	PenI repressor optimized for E. coli (inverted sequence). Optimized PenI repressor with LVA tag from Bacillus licheniformis, with preferential codon usage for improved expression in E. coli. PenI negatively regulates transcription from pPenI promoter (BBa_R0074).
BBa_K566008	*Mnt repressor optimized for E. coli. Mnt repressor optimized from part BBa_C0072 with preferential codon usage for improved expression in E. coli. It acts on pMnt promoter (BBa_R0073).*
BBa_K566009	pCpcG2 promoter, inverted sequence (Green light inducible). Inverted Green light inducible pCpcG2 promoter, from pJT122 plasmid constructed by Tabor et al. (2010). It is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light. Light intensities must be carefully regulated to achieve successful gene expression. The sequence was inverted to ease DNA synthesis.
BBa_K566010	PenI repressor optimized for E. coli (inverted sequence). Optimized PenI repressor with LVA tag from Bacillus licheniformis, with preferential codon usage for improved expression in E. coli. Negatively regulates transcription from pPenI promoter. (BBa_R0074). The nucleotide sequence was inverted to ease DNA synthesis.
BBa_K566011	cI434 repressor from phage 434 optimized for E. coli cI (+LVA). Optimized cI434 repressor with LVA tag from phage 434, with preferential codon usage for improved expression in E. coli.
BBa_K566012	*cI repressor from Lambda phage optimized for E. coli.* Includes LVA tag for faster degradation. It has preferential codons to improve their expression in E. coli.
BBa_K566013	*RFP optimized for E. coli* (+LVA).** Includes LVA tag for faster degradation. Preferential codons usage to improve their expression in E. coli.
BBa_K566015	pRM-RBS-cI434. Composite part for Biphasic switch tests. Include pRM promoter from phage λ pRM promoter from Lambda phage. It may be positively and negatively regulated according to cI protein concentration. Low [cI] turn it ON, high [cI] turn it OFF. It contains three operators named OR1, OR2 and OR3, all cI binding sites. When bound to OR1 and OR2, cI positively regulates pRM; cI binding to OR3 repress pRM. However, due to a low binding affinity to OR3, higher concentrations of the protein are required. A RBS sequence from the Elowitz repressilator that defines the RBS efficiency (BBa_B0034). Also contain the cI434 coding sequence optimized for E. coli, its come from the registered part cI434 repressor protein (BBa_C0052), It binds to the 434 regulatory sequence in λ pRM promoter. The sequence contains a LVA tag for faster degradation.
BBa_K566016	OL-pTetMnt-cI. Induction system for Biphasic Switch. It responds to negative repression from TetR or cI repressor.
BBa_K566017	pRM434-RFP. Red Fluorescent Protein under the control of pRM434 promoter. It was constructed for demonstrating dual state of a biphasic switch.
BBa_K566019	E. coli MxRed. Derived from Dr. Jeff Tabor JT2 E. coli strain, this part is a built-in red-light induction system in E. coli made through chromosome insertion. Avoiding the need of any extra-chromosomal DNA when light-inducing gene expression offering several advantages to the researcher. It is proposed as a photo-chassis that could make useful tools in this field of light induction. Integration include the genes pcyA, ho1, Cph8 and a Mnt working as follows: Genes ho1 and pcyA are responsible for the chromophore synthesis. Cph8 codes for the chimaeric red-light receptor. These three genes are constitutively expressed. Mnt repressor is expressed from pOmpC promoter, and the red light stops its induction. It is therefore used as a NOT-gate to regulate expression from pMnt.
BBa_K566020	Mnt repressor regulated by pOmpC.
BBa_K566021	pcyA CDS.
BBa_K566022	ho1 CDS
BBa_K566023	pcyA gene (constitutive expression). pcyA gene transcribed from constitutive promoter.
BBa_K566024	ho1 gene (constitutive expression). ho1 gene transcribed from constitutive promoter. ho1, along with pcyA, converts heme into the chromophore phycocyanobillin (PCB).
BBa_K566025	Cph8 CDS. The red light-sensing protein Cph8 is expressed in the phosphorylated ground state. It is switched to the unphosphorylated state by 650-nm light and back to the phosphorylated state by 705-nm light. When phosphorylated, Cph8 passes a phosphoryl group to OmpR, which then binds to and activates transcription from PompC. Because it is inactivated by red light, Cph8 can be considered a logical (NOT red) sensor. A genetic inverter or logical NOT gate is used to invert the response of the (NOT red) sensor to that of a red light sensor.
BBa_K566026	Cph8 gene for red-photoreceptor (constitutive expression). Cassette for constitutive expression of Cph8, originally constructed by Dr. Jeff Tabor. This gene codifies for the red light-sensing protein Cph8, which is expressed in the phosphorylated ground state. It is switched to the unphosphorylated state by 650-nm light and back to the phosphorylated state by 705-nm light. When phosphorylated, Cph8 passes a phosphoryl group to OmpR, which then binds to and activates transcription from PompC. Because it is inactivated by red light, Cph8 can be considered a logical (NOT red) sensor. A genetic inverter or logical NOT gate is used to invert the response of the (NOT red) sensor to that of a red light sensor.
BBa_K566028	ho1 CDS
BBa_K566029	ho1 CDS
BBa_K566030	ho1 CDS
BBa_K566031	ho1 CDS
BBa_K566032	ho1 CDS

OurSymbol

@@ Line 97: / Line 97: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566000" target="_new">BBa_K566000</a></td>
      <td class="justified"><b>OL region from Lambda phage</b> allows biphasic switch <a href="http://partsregistry.org/Part:BBa_K566002" target="_new" >(K566002)</a> effective repression: When placed around 2.4 kb apart from OR (included in pRM) and in high [cI] conditions, cI octamerizes and loops the DNA stabilizing cI binding to OR3; such structure represses pRM promoter <a href="http://partsregistry.org/Part:BBa_K566001" target="_new" >(K566001)</a>.</td>
-     <td class="adjacent">&nbsp;</td>
+     <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566001" target="_new">BBa_K566001</a></td>
      <td class="justified"><b>pRM promoter from Lambda</b> phage. It may be positively and negatively regulated according to cI protein concentration. Low [cI] induce it, high [cI] repress it. It needs OL region <a href="http://partsregistry.org/Part:BBa_K566000" target="_new" >(K566000)</a> for effective repression. Makes the biphasic switch <a href="http://partsregistry.org/Part:BBa_K566002" >(K566002)</a> together with OL region. </td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566002" target="_new">BBa_K566002</a></td>
      <td class="justified">The <b>Biphasic Switch</b> combines positive and negative regulation through a single input. It is turned ON by low lambda cI concentrations and OFF by high cI concentrations.</td>
-      <td class="adjacent"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
+      <td class="right"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566003" target="_new">BBa_K566003</a></td>
      <td class="justified"> <b>CFP optimized for <i>E. coli</i>.</b> Cyan fluorescent protein optimized from part <a href="http://partsregistry.org/Part:BBa_E0022" target="_new">BBa_E0022</a> with preferential codon usage for improved expression in <i>E. coli</i>. It is a monomeric protein generated on the basis of GFP-like protein from jellyfish Aequorea victoria . It possesses bright fluorescence with exitation/emission maxima at 434 and 477 nm, respectively. It has an extinction coefficient of 26,000 M-1 cm-1.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566004" target="_new">BBa_K566004</a></td>
      <td class="justified"><b>Protein generator of cyan fluorescent protein without transcription terminator.</b> It may be negatively regulated by Mnt repressor <a href="http://partsregistry.org/Part:BBa_C0072" target="_new">(BBa_C0072)</a>.</td>
-      <td class="adjacent"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
+      <td class="right"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566005" target="_new">BBa_K566005</a></td>
      <td class="justified"><b>pCpcG2 promoter (Green light inducible).</b> Green light inducible pCpcG2 promoter from pJT122 plasmid constructed by Tabor et al. (2010). It is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light. Light intensities must be carefully regulated to achieve successful gene expression.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566006" target="_new">BBa_K566006</a></td>
      <td class="justified"> <b>penI-pCpcG2-pPenI-mnt.</b> Repression-based potential AND gate. Mnt Repressor is under the control of the PenI repressible promoter. PenI repressor is placed under the control of green light inducible pCpcG2 promoter. pCpcG2 promoter is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light.</td>
-      <td class="adjacent"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
+      <td class="right"><img src="https://static.igem.org/mediawiki/2011/2/2e/Star.png "width="20px" height="20px" alt="star" align="center"></td>
    </tr>
@@ Line 133: / Line 133: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566007" target="_new">BBa_K566007</a></td>
      <td class="justified"><b>PenI repressor optimized for E. coli (inverted sequence).</b> Optimized PenI repressor with LVA tag from Bacillus licheniformis, with preferential codon usage for improved expression in <i>E. coli</i>. PenI negatively regulates transcription from pPenI promoter <a href="http://partsregistry.org/Part:BBa_R0074" target="_new">(BBa_R0074)</a>.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566008" target="_new">BBa_K566008</a></td>
      <td class="justified"><b>Mnt repressor optimized for <i>E. coli</i>.<b> Mnt repressor optimized from part BBa_C0072 with preferential codon usage for improved expression in <i>E. coli</i>. It acts on pMnt promoter <a href="http://partsregistry.org/Part:BBa_R0073" target="_new">(BBa_R0073)</a>.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
    <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566009" target="_new">BBa_K566009</a></td>
      <td class="justified"><b>pCpcG2 promoter, inverted sequence (Green light inducible).</b> Inverted Green light inducible pCpcG2 promoter, from pJT122 plasmid constructed by Tabor et al. (2010). It is positively regulated by the two component system CcaS/R, which exhibits a maximum response in 535 nm and is inactivated in 650 nm light. Light intensities must be carefully regulated to achieve successful gene expression. The sequence was inverted to ease DNA synthesis.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 149: / Line 149: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566010" target="_new">BBa_K566010</a></td>
      <td class="justified"><b>PenI repressor optimized for E. coli (inverted sequence).</b> Optimized PenI repressor with LVA tag from Bacillus licheniformis, with preferential codon usage for improved expression in <i>E. coli</i>. Negatively regulates transcription from pPenI promoter. <a href="http://partsregistry.org/Part:BBa_R0074" target="_new">(BBa_R0074)</a>. The nucleotide sequence was inverted to ease DNA synthesis.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 156: / Line 156: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566011" target="_new">BBa_K566011</a></td>
      <td class="justified"><b>cI434 repressor from phage 434 optimized for E. coli cI (+LVA).</b> Optimized cI434 repressor with LVA tag from phage 434, with preferential codon usage for improved expression in <i>E. coli</i>.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 163: / Line 163: @@
      <td class="justified"><b>cI repressor from Lambda phage optimized for <i>E. coli</i>.</b> Includes LVA tag for faster degradation.<br/>
 It has preferential codons to improve their expression in <i>E. coli</i>.</td>
-  <td class="adjacent">&nbsp;</td>
+  <td class="right">&nbsp;</td>
    </tr>
@@ Line 170: / Line 170: @@
      <td class="justified"><b>RFP optimized for <i>E. coli</i> (+LVA).</b> Includes LVA tag for faster degradation.<br/>
 Preferential codons usage to improve their expression in <i>E. coli</i>.</td>
-  <td class="adjacent">&nbsp;</td>
+  <td class="right">&nbsp;</td>
    </tr>
@@ Line 178: / Line 178: @@
      <td class="justified"><b>pRM-RBS-cI434.</b> Composite part for Biphasic switch tests. Include pRM promoter from phage λ pRM promoter from Lambda phage. It may be positively and negatively regulated according to cI protein concentration. Low [cI] turn it ON, high [cI] turn it OFF. It contains three operators named OR1, OR2 and OR3, all cI binding sites. When bound to OR1 and OR2, cI positively regulates pRM; cI binding to OR3 repress pRM. However, due to a low binding affinity to OR3, higher concentrations of the protein are required. <br/>
 A RBS sequence from the Elowitz repressilator that defines the RBS efficiency <a href="http://partsregistry.org/Part:BBa_B0034" target="_new">(BBa_B0034)</a>. Also contain the cI434 coding sequence optimized for <i>E. coli</i>, its come from the registered part cI434 repressor protein <a href="http://partsregistry.org/Part:BBa_C0052" target="_new">(BBa_C0052)</a>, It binds to the 434 regulatory sequence in λ pRM promoter. The sequence contains a LVA tag for faster degradation. </td>
-  <td class="adjacent">&nbsp;</td>
+  <td class="right">&nbsp;</td>
    </tr>
@@ Line 185: / Line 185: @@
      <td class="justified"> <b>OL-pTetMnt-cI.</b> Induction system for Biphasic Switch. <br/>
 It responds to negative repression from TetR or cI repressor. </td>
-  <td class="adjacent">&nbsp;</td>
+  <td class="right">&nbsp;</td>
    </tr>
@@ Line 192: / Line 192: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566017" target="_new" >BBa_K566017</a></td>
      <td class="justified"><b>pRM434-RFP.</b> Red Fluorescent Protein under the control of pRM434 promoter. It was constructed for demonstrating dual state of a biphasic switch. </td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 203: / Line 203: @@
 Integration include the genes pcyA, ho1, Cph8 and a Mnt working as follows: Genes ho1 and pcyA are responsible for the chromophore synthesis. Cph8 codes for the chimaeric red-light receptor. These three genes are constitutively expressed. Mnt repressor is expressed from pOmpC promoter, and the red light stops its induction. It is therefore used as a NOT-gate to regulate expression from pMnt.
   </td>
-   <td class="adjacent">&nbsp;</td>
+   <td class="right">&nbsp;</td>
    </tr>
@@ Line 210: / Line 210: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566020" target="_new">BBa_K566020</a></td>
      <td class="justified"><b>Mnt repressor regulated by pOmpC.</b> </td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 217: / Line 217: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566021" target="_new">BBa_K566021</a></td>
      <td class="justified"><b>pcyA CDS.</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 224: / Line 224: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566022" target="_new" >BBa_K566022</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 231: / Line 231: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566023" target="_new">BBa_K566023</a></td>
      <td class="justified"><b>pcyA gene (constitutive expression).</b> pcyA gene transcribed from constitutive promoter.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 237: / Line 237: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566024" target="_new" >BBa_K566024</a></td>
      <td class="justified"><b>ho1 gene (constitutive expression).</b> ho1 gene transcribed from constitutive promoter. ho1, along with pcyA, converts heme into the chromophore phycocyanobillin (PCB). </td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 245: / Line 245: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566025" target="_new" >BBa_K566025</a></td>
      <td class="justified"><b>Cph8 CDS.</b> The red light-sensing protein Cph8 is expressed in the phosphorylated ground state. It is switched to the unphosphorylated state by 650-nm light and back to the phosphorylated state by 705-nm light. When phosphorylated, Cph8 passes a phosphoryl group to OmpR, which then binds to and activates transcription from PompC. Because it is inactivated by red light, Cph8 can be considered a logical (NOT red) sensor. A genetic inverter or logical NOT gate is used to invert the response of the (NOT red) sensor to that of a red light sensor.</td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 254: / Line 254: @@
      <td class="justified"><b>Cph8 gene for red-photoreceptor (constitutive expression).</b> Cassette for constitutive expression of Cph8, originally constructed by Dr. Jeff Tabor.<br/>
 This gene codifies for the red light-sensing protein Cph8, which is expressed in the phosphorylated ground state. It is switched to the unphosphorylated state by 650-nm light and back to the phosphorylated state by 705-nm light. When phosphorylated, Cph8 passes a phosphoryl group to OmpR, which then binds to and activates transcription from PompC. Because it is inactivated by red light, Cph8 can be considered a logical (NOT red) sensor. A genetic inverter or logical NOT gate is used to invert the response of the (NOT red) sensor to that of a red light sensor. </td>
-  <td class="adjacent">&nbsp;</td>
+  <td class="right">&nbsp;</td>
-  </tr>
-    <tr>
-    <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566027" target="_new">BBa_K566027</a></td>
-    <td class="final"><b>ho1 CDS</b></td>
-     <td class="adjacent">&nbsp;</td>
    </tr>
      <tr>
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566028" target="_new" >BBa_K566028</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 271: / Line 267: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566029" target="_new" >BBa_K566029</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 277: / Line 273: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566030" target="_new" >BBa_K566030</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 283: / Line 279: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566031" target="_new" >BBa_K566031</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>
@@ Line 289: / Line 285: @@
      <td class="adjacent"><a href="http://partsregistry.org/Part:BBa_K566032" target="_new" >BBa_K566032</a></td>
      <td class="justified"><b>ho1 CDS</b></td>
-      <td class="adjacent">&nbsp;</td>
+      <td class="right">&nbsp;</td>
    </tr>