Team:ESBS-Strasbourg/Project/Reference

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</li>
</li>
<li>
<li>
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<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team">&nbsp;&nbsp;TEAM</a></p>
+
<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team">
 +
&nbsp;&nbsp;TEAM</a></p>
<ul>
<ul>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team">Overview</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team">
 +
Overview</a></li>
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#under">
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#under">
Students</a></li>
Students</a></li>
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<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#instructors">
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#advisors">
Advisors</a></li>
Advisors</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#instructors">
 +
Instructors</a></li>
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#uni">
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#uni">
Strasbourg</a></li>
Strasbourg</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Team#collaboration">
 +
Collaboration</a></li>
                                
                                
</ul>
</ul>
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<li>
<li>
<p><br />
<p><br />
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<a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project">&nbsp;&nbsp;PROJECT</a></p>
+
<a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project">
 +
&nbsp;&nbsp;PROJECT</a></p>
<ul>
<ul>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project">Overview</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project">
 +
Overview</a></li>
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Strategy">
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Strategy">
Strategy</a></li>
Strategy</a></li>
 +
                                <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/visual">
 +
Visual Description</a></li>
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Application">
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Application">
Application</a></li>
Application</a></li>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Acknowledgment">Acknowledgment</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Acknowledgment">
 +
Acknowledgment</a></li>
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Reference">
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Reference">
Reference</a></li>
Reference</a></li>
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</li>
</li>
<li>
<li>
-
<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results">&nbsp;&nbsp;RESULTS</a></p>                 
+
<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Biobricks">
 +
&nbsp;&nbsp;RESULTS</a></p>                 
                         <ul>
                         <ul>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Biobricks">Biobricks</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Biobricks">
 +
Biobricks</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Assembly">
 +
<font size="3">Biobrick Assembly Technique</font></a></li>
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Characterization">
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Characterization">
Characterization</a></li>
Characterization</a></li>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Modelling">Modelling</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Modelling">
 +
Modeling</a></li>
 +
 
</ul>
</ul>
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</li>
</li>
<li>
<li>
-
<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook">&nbsp;&nbsp;NOTEBOOK</a></p>
+
<p><br/><a>
 +
&nbsp;&nbsp;NOTEBOOK</a></p>
                         <ul>
                         <ul>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Syntethic">Synthetic Photoreceptors</a></li>
+
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Syntethic">
 +
Synthetic Photoreceptors</a></li>
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Microfluidics">
                                 <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Microfluidics">
Microfluidics</a></li>
Microfluidics</a></li>
-
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Labbook">Lab-book</a></li>
+
                                <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Results/Device">Lighting device</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Notebook/Labbook">
 +
Lab-book</a></li>
</ul>
</ul>
</li>
</li>
 +
 +
<li>
 +
<p><br/><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice">
 +
HUMAN PRACTICE</a></p>
 +
                        <ul>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice#organisation">
 +
Organisation</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice#survey">
 +
Survey</a></li>
 +
                                <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice#video">
 +
The ClpX video</a></li>
 +
                                <li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice#game">
 +
The ClpX game</a></li>
 +
<li><a href="https://2010.igem.org/Team:ESBS-Strasbourg/Humanpractice#safety">
 +
Project Safety</a></li>
 +
 +
</ul>
 +
 +
</li>
 +
                 <li class="last">
                 <li class="last">
<p><br />
<p><br />
-
<a href="https://2010.igem.org/Team:ESBS-Strasbourg/Sponsors">&nbsp;&nbsp;SPONSORS</a></p>
+
<a href="https://2010.igem.org/Team:ESBS-Strasbourg/Sponsors">
 +
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;SPONSORS</a></p>
</li>
</li>
</ul>
</ul>
 +
</div>
 +
</div>
</div>
</div>
</div>
</div>
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<div id="leftmenu">
<td width="210" rowspan=3 bgcolor="#414141" valign="top">
<td width="210" rowspan=3 bgcolor="#414141" valign="top">
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<br>
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-
<div class="heading">Application</div>
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<div class="heading">References</div>
<div class="desc">
<div class="desc">
-
.... :<br><br>
+
 
-
<a href="http://">1.</a>
+
<div id="windowbox" style="position:fixed; top:50%; left:20px; width:11%;">
 +
<span style="color:ivory;">
 +
&nbsp;&nbsp;
 +
<a href="https://2010.igem.org/Team:ESBS-Strasbourg/science">
 +
<img border="0" src="https://static.igem.org/mediawiki/2010/d/da/ESBS-Strasbourg-Clpx.gif" width="70" height="85" ></a>
<br>
<br>
-
<a href="http://">2.</a>
+
Let me guide you</span>
-
<br>
+
 
-
<a href="http://">3.</a>
+
-
<br>
+
-
<a href="https://2010.igem.org/Team:ESBS-Strasbourg/Project/Strategy#system">4. Light controllable protease</a>
+
-
<br><br>
+
-
<a href="http://">other link if needed</a>
+
</div>
</div>
</p></div>
</p></div>
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<td width="750" bgcolor="#414141">
<div class="desc">
<div class="desc">
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<div class="heading">Bla</div>
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<div class="heading">References</div>
-
<center>
+
<br>
<br>
-
<img src="https://static.igem.org/mediawiki/2010/c/cf/Team_ESBS-Strasbourg_construction.jpg">
+
<ul>
-
</center>
+
<font>
-
<br>
+
<li><p ALIGN="LEFT">
-
blabla</div>
+
[1] Bae, G., G. Choi </span>
-
<br>
+
<span>(2009).&quot;Decoding of light signals by plant phytochromes and their interacting proteins.&quot; <u>Annu Rev Plant Biol </u><b>59</b>:281-311.</span></p></li>
-
</td>
+
<li><p ALIGN="LEFT">
-
</tr>
+
[2] Baker, T. A., R. T. Sauer, et al. </span>
 +
<span>(2009).&quot;Engineering synthetic adaptors and substrates for controlled ClpXP
 +
degradation.&quot; <u>J Biol Chem </u><b>284</b>(33): 21848-55.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[3] Baker, T. A., R. T. Sauer, et al. </span>
 +
<span>(2009).
 +
&quot;Structures of asymmetric ClpX hexamers reveal nucleotide-dependent motions in a
 +
AAA+ protein-unfolding machine.&quot; <u>Cell</u> <b>139</b>(4): 744-56.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[4] Baker, T. A., R. T. Sauer, et al. </span>
 +
<span>(2010).
 +
&quot;Control of substrate gating and translocation into ClpP by channel residues and
 +
ClpX binding.&quot; <u>J Mol Biol</u> <b>399</b>(5): 707-18.</span></p></li>
 +
<li><p ALIGN="LEFT">[5] Baker,
 +
T. A., R. T. Sauer, et al. (2005). &quot;Versatile modes of peptide recognition by
 +
the AAA+ adaptor protein SspB.&quot; <u>Nat Struct Mol Biol</u> <b>12</b>(6): 520-5.</span></p></li>
 +
<li><p ALIGN="LEFT">[6] Baker,
 +
T. A., R. T. Sauer, et al. (2005). &quot;Rebuilt AAA + motors reveal operating
 +
principles for ATP-fuelled machines.&quot; </span><u>
 +
<span>
 +
Nature</span></u><span>
 +
<b>437</b>(7062): 1115-20.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[7] Baker, T. A., R. T. Sauer, et al. </span>
 +
<span>(2006).
 +
&quot;Engineering controllable protein degradation.&quot; <u>Mol Cell</u> <b>22</b>(5):
 +
701-7.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[8] Baker, T. A., R. T. Sauer, et al. </span>
 +
<span>(2007).
 +
&quot;Altered tethering of the SspB adaptor to the ClpXP protease causes changes in
 +
substrate delivery.&quot; <u>J Biol Chem</u> <b>282</b>(15): 11465-73.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[9] Deisseroth, K., F. Zhang, et al. </span>
 +
<span>(2006).
 +
&quot;Channelrhodopsin-2 and optical control of excitable cells.&quot; <u>Nat Methods</u>
 +
<b>3</b>(10): 785-92.</span></p></li>
 +
<li><p ALIGN="LEFT">[10]
 +
Fussenegger, M., M. Tigges, et al. (2009). &quot;A tunable synthetic mammalian
 +
oscillator.&quot; <u>Nature</u> <b>457</b>(7227): 309-12.</span></p></li>
 +
<li><p ALIGN="LEFT">[11]
 +
Goldberg, A. L. (2003). &quot;Protein degradation and protection against misfolded or
 +
damaged proteins.&quot; </span><u>
 +
<span>
 +
Nature</span></u><span>
 +
<b>426</b>(6968): 895-9.</span></p></li>
 +
<li><p ALIGN="LEFT">[12]
 +
Gregersen, N., C. B. Pedersen, et al.(2003). &quot;Misfolding, degradation, and aggregation of variant proteins. The molecular pathogenesis of short chain acyl-CoA dehydrogenase (SCAD) deficiency.&quot; <u>J Biol Chem</u> <b>278</b>(48): 47449-58.</span></p></li>
 +
<li><p ALIGN="LEFT">[13]
 +
Grossman, A. D. and K. L. Griffith (2008). &quot;Inducible protein degradation in
 +
Bacillus subtilis using heterologous peptide tags and adaptor proteins to target
 +
substrates to the protease ClpXP.&quot; <u>Mol Microbiol</u> <b>70</b>(4): 1012-25.</span></p></li>
 +
<li><p ALIGN="LEFT">[14]
 +
Houry, W. A., U. A. Wojtyra, et al. (2003). &quot;The N-terminal zinc binding domain
 +
of ClpX is a dimerization domain that modulates the chaperone function.&quot; <u>J
 +
Biol Chem</u> <b>278</b>(49): 48981-90.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[15] Hughes, J., F. T. Landgraf, et al. </span>
 +
<span>(2001).
 +
&quot;Recombinant holophytochrome in Escherichia coli.&quot; <u>FEBS Lett</u> <b>508</b>(3):
 +
459-62.</span></p></li>
 +
<li><p ALIGN="LEFT">[16]
 +
Isacoff, E. Y. and P. Gorostiza (2008). &quot;Optical switches for remote and
 +
noninvasive control of cell signaling.&quot; <u>Science</u> <b>322</b>(5900): 395-9.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[17] Kohchi, T., K. Mukougawa, et al. </span>
 +
<span>(2006).
 +
&quot;Metabolic engineering to produce phytochromes with phytochromobilin,
 +
phycocyanobilin, or phycoerythrobilin chromophore in Escherichia coli.&quot; <u>FEBS
 +
Lett</u> <b>580</b>(5): 1333-8.</span></p></li>
 +
<li><p ALIGN="LEFT">[18]
 +
Sauer, R.T., C.M. Farrell, et al. (2005). &quot;Cytoplasmic degradation of ssrA-tagged proteins.&quot; <u>Mol. Microbiol.</u> <b>57</b>(6): 1750-61.</span></p></li>
 +
<li><p ALIGN="LEFT">[19]
 +
Lagarias, J. C. and G. A. Gambetta (2001). &quot;Genetic engineering of phytochrome
 +
biosynthesis in bacteria.&quot; <u>Proc Natl Acad Sci U S A</u> <b>98</b>(19):
 +
10566-71.</span></p></li>
 +
<li><p ALIGN="LEFT">[20]
 +
Lagarias, J. C., N. C. Rockwell, et al. (2006). &quot;Phytochrome structure and
 +
&nbsp;signaling mechanisms.&quot; </span><u>
 +
<span>
 +
Annu Rev Plant Biol</span></u><span>
 +
<b>57</b>: 837-58.</span></p></li>
 +
<li><p ALIGN="LEFT">[21]
 +
Lagarias, J.C., M.T. McDowell (2002). &quot;Analysis and reconstitution of
 +
phytochromes.&quot; <u>Heme, Chlorophyll, and Bilins: Methods and Protocols</u>,
 +
293-309</span></p></li>
 +
<li><p ALIGN="LEFT">[22]
 +
Maurizi, M. R., R. Grimaud, et al. (1998). &quot;Enzymatic and structural
 +
similarities between the Escherichia coli ATP-dependent proteases, ClpXP and
 +
ClpAP.&quot; <u>J Biol Chem</u> <b>273</b>(20): 12476-81.</span></p></li>
 +
<li><p ALIGN="LEFT">[23]
 +
Millar, A. J., O. Sorokina, et al. (2009). &quot;A switchable light-input,
 +
light-output system modelled and constructed in yeast.&quot; <u>J Biol Eng</u> <b>3</b>:
 +
15.</span></p></li>
 +
<li><p ALIGN="LEFT">[24]
 +
Moffat, K. and A. Moglich (2010). &quot;Engineered photoreceptors as novel
 +
optogenetic tools.&quot; <u>Photochem Photobiol Sci</u> <b>9</b>(10): 1286-300.</span></p></li>
 +
<li><p ALIGN="LEFT">[25]
 +
Moffat, K., A. Moglich, et al. (2010). &quot;Structure and function of plant photoreceptors.&quot; <u>Annu Rev Plant Biol</u> <b>61</b>: 21-47.</span></p></li>
 +
<li><p ALIGN="LEFT">[26]
 +
Moroder, L. and C. Renner (2006). &quot;Azobenzene as conformational switch in model
 +
peptides.&quot; <u>Chembiochem</u> <b>7</b>(6): 868-78.</span></p></li>
 +
<li><p ALIGN="LEFT">[27]
 +
Morrison, D. A. and S. Ahlawat (2009). &quot;ClpXP degrades SsrA-tagged proteins in
 +
Streptococcus pneumoniae.&quot; </span><u>
 +
<span>
 +
J Bacteriol</span></u><span>
 +
<b>191</b>(8): 2894-8.</span></p></li>
 +
<li><p ALIGN="LEFT">[28] Muir,
 +
T. W. and A. B. Tyszkiewicz (2008). &quot;Activation of protein splicing with light
 +
in yeast.&quot; <u>Nat Methods</u> <b>5</b>(4): 303-5.</span></p></li>
 +
<li><p ALIGN="LEFT">[29]
 +
Quail, P. H. (2002). &quot;Phytochrome photosensory signalling networks.&quot; <u>Nat Rev
 +
Mol Cell Biol</u> <b>3</b>(2): 85-93.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[30] Quail, P. H., R. Khanna, et al. </span>
 +
<span>(2004). &quot;A
 +
novel molecular recognition motif necessary for targeting photoactivated
 +
phytochrome signaling to specific basic helix-loop-helix transcription factors.&quot;
 +
<u>Plant Cell</u> <b>16</b>(11): 3033-44.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[31] Quail, P. H., E. Schafer, et al. </span>
 +
<span>(2006). &quot;Photoactivated
 +
phytochrome induces rapid PIF3 phosphorylation prior to proteasome-mediated
 +
degradation.&quot; </span><u>
 +
<span>
 +
Mol Cell</span></u><span>
 +
<b>23</b>(3): 439-46.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[32] Quail, P. H., S. Shimizu-Sato, et al. </span>
 +
<span>(2002). &quot;A
 +
light-switchable gene promoter system.&quot; <u>Nat Biotechnol</u> <b>20</b>(10):
 +
1041-4.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[33] Quail PH., D. Wagner et al. (1996) &quot;Two small spatially distinct regions of phytochrome B are required for efficient signaling rates.&quot; <u>Plant Cell</u> <b>8</b>:859–71.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[34] Park Y., H. Song (2008) &quot;A degradation signal recognition in prokaryotes.&quot; <u>J. Synchrotron Rad</u><b>15</b>:246–249.</span></p></li>
 +
<li><p ALIGN="LEFT">[35]
 +
Rosen, M. K., D. W. Leung, et al. (2008). &quot;Genetically encoded photoswitching of
 +
actin assembly through the Cdc42-WASP-Arp2/3 complex pathway.&quot; <u>Proc Natl Acad
 +
Sci U S A</u> <b>105</b>(35): 12797-802.</span></p></li>
 +
<li><p ALIGN="LEFT"><span>[36] Schafer, E., T. Kunkel, et
 +
al. </span>
 +
<span>(1993).
 +
&quot;In vitro formation of a photoreversible adduct of phycocyanobilin and tobacco
 +
apophytochrome B.&quot; <u>Eur J Biochem</u> <b>215</b>(3): 587-94.</span></p></li>
 +
<li><p ALIGN="LEFT"><span>[37] Schaffner, K., C. Hill, et
 +
al. </span>
 +
<span>(1994).
 +
&quot;Expression of phytochrome apoprotein from Avena sativa in Escherichia coli and
 +
formation of photoactive chromoproteins by assembly with phycocyanobilin.&quot; <u>
 +
Eur J Biochem</u> <b>223</b>(1): 69-77.</span></p></li>
 +
<li><p ALIGN="LEFT">[38]
 +
Sejnowski, T. J. and M. U. Gillette (2005). &quot;Physiology. Biological clocks
 +
coordinately keep life on time.&quot; </span><u>
 +
<span>
 +
Science</span></u><span>
 +
<b>309</b>(5738): 1196-8.</span></p></li>
 +
<li><p ALIGN="LEFT">[39]
 +
Sharrock, R. A. (2008). &quot;The phytochrome red/far-red photoreceptor superfamily.&quot;
 +
<u>Genome Biol</u> <b>9</b>(8): 230.</span></p></li>
 +
<li><p ALIGN="LEFT">[40] Su,
 +
Z., H. Li, et al. (2010). &quot;A protease-based strategy for the controlled release
 +
of therapeutic peptides.&quot; <u>Angew Chem Int Ed Engl</u> <b>49</b>(29): 4930-3.</span></p></li>
 +
<li><p ALIGN="LEFT">[41]
 +
Voigt, C. A., A. Levskaya, et al. (2005). &quot;Synthetic biology: engineering
 +
Escherichia coli to see light.&quot; </span><u>
 +
<span>
 +
Nature</span></u><span>
 +
<b>438</b>(7067): 441-2.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[42] Voigt, C. A., A. Levskaya, et al. </span>
 +
<span>(2009).
 +
&quot;Spatiotemporal control of cell signaling using a light-switchable protein
 +
interaction.&quot; <u>Nature</u> <b>461</b>(7266): 997-1001.</span></p></li>
 +
<li><p ALIGN="LEFT">[43]
 +
Weaver, D. R. and S. M. Reppert (1997). &quot;Forward genetic approach strikes gold:
 +
cloning of a mammalian clock gene.&quot; </span><u>
 +
<span>
 +
Cell</span></u><span>
 +
<b>89</b>(4): 487-90.</span></p></li>
 +
<li><p ALIGN="LEFT">[44]
 +
</span>
 +
<span>Weitz, C. J., K. F.
 +
Storch, et al. </span>
 +
<span>(2002).
 +
&quot;Extensive and divergent circadian gene expression in liver and heart.&quot; <u>
 +
Nature</u> <b>417</b>(6884): 78-83.</span></p></li>
 +
<li><p ALIGN="LEFT">
 +
[45] Wu SH., JC. Lagarias JC. (2000) &quot;Defining the bilin lyase domain: lessons from the extended phytochrome superfamily.&quot; <u>Biochemistry</u><b>39</b>:13487–95.</span></p></li>
 +
<li><p ALIGN="LEFT">[46]
 +
</span>
 +
<span>Zuber, P. and Y.
 +
Zhang (2007). </span>
 +
<span>
 +
&quot;Requirement of the zinc-binding domain of ClpX for Spx proteolysis in Bacillus
 +
subtilis and effects of disulfide stress on ClpXP activity.&quot; </span><u>
 +
<span>
 +
J Bacteriol</span></u><span>
 +
<b>189</b>(21): 7669-80.</span></p></li>
 +
</ul>
 +
 
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Latest revision as of 22:56, 27 October 2010

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References

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