"
Team:Peking/DataPage/Parts
From 2013.igem.org
| Line 424: | Line 424: | ||
<table border="1" id="XylSTable"; style="position:relative; top:40px;"> | <table border="1" id="XylSTable"; style="position:relative; top:40px;"> | ||
<tr> | <tr> | ||
| + | |||
| + | <th>Biosensors</th> | ||
<th>NahR</th> | <th>NahR</th> | ||
<th>XylS</th> | <th>XylS</th> | ||
| Line 430: | Line 432: | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| + | <th>NahR</th> | ||
<td>Broader aromatics-sensing profiles with high induction ratio</td> | <td>Broader aromatics-sensing profiles with high induction ratio</td> | ||
<td>Arg<sup>45</sup><Code>→</Code>Thr</td> | <td>Arg<sup>45</sup><Code>→</Code>Thr</td> | ||
| + | <td>SaA; 4-EtBzO; BzO; 2-MeBzO; 4-MeBzO</td> | ||
<td>SaA; 4-EtBzO; BzO; 2-MeBzO; 4-MeBzO</td> | <td>SaA; 4-EtBzO; BzO; 2-MeBzO; 4-MeBzO</td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| + | <th>XylS</th> | ||
<td>Constitutive <i>Pm</i> promoter activation</td> | <td>Constitutive <i>Pm</i> promoter activation</td> | ||
<td>Trp<sup>88</sup><Code>→</Code>Leu</td> | <td>Trp<sup>88</sup><Code>→</Code>Leu</td> | ||
| + | <td>Not mentioned, this mutant causes constitutive expression of <i>Pm</i> promoter</td> | ||
<td>Not mentioned, this mutant causes constitutive expression of <i>Pm</i> promoter</td> | <td>Not mentioned, this mutant causes constitutive expression of <i>Pm</i> promoter</td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| + | <th>HbpR</th> | ||
<td rowspan="5">Broader aromatics-sensing profiles with lower induction ratios</td> | <td rowspan="5">Broader aromatics-sensing profiles with lower induction ratios</td> | ||
<td>Arg<sup>152</sup><Code>→</Code>Gly</td> | <td>Arg<sup>152</sup><Code>→</Code>Gly</td> | ||
| + | <td>BzO; 2-MeBzO; 2-,3-ClBzO; 2-,3- and 4-MeOBzO</td> | ||
<td>BzO; 2-MeBzO; 2-,3-ClBzO; 2-,3- and 4-MeOBzO</td> | <td>BzO; 2-MeBzO; 2-,3-ClBzO; 2-,3- and 4-MeOBzO</td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
| + | <th>DmpR</th> | ||
<td>Arg<sup>41</sup><Code>→</Code>His</td> | <td>Arg<sup>41</sup><Code>→</Code>His</td> | ||
<td>BzO; 3-MeBzO; 3-ClBzO; 3-BrBzO; 3-MeOBzO</td> | <td>BzO; 3-MeBzO; 3-ClBzO; 3-BrBzO; 3-MeOBzO</td> | ||
| - | |||
| - | |||
<td>Asp<sup>288</sup><Code>→</Code>Val</td> | <td>Asp<sup>288</sup><Code>→</Code>Val</td> | ||
<td>BzO; 3-MeBzO; 4-MeOBzO; 4-BrBzO; 2,4-MeBzO; 2,5-MeBzO; 3-ClBzO</td> | <td>BzO; 3-MeBzO; 4-MeOBzO; 4-BrBzO; 2,4-MeBzO; 2,5-MeBzO; 3-ClBzO</td> | ||
</tr> | </tr> | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
</table> | </table> | ||
Revision as of 18:11, 26 September 2013
Parts
XylS Main Page-BBa_K1031911 XylS is a σ70-dependent transcriptional factor, which may activate Pm promoter when benzoate acid and its homologous compounds’ binding. We constructed constitutive promoter Pc library to tune its performance. Adaptor of this biosensor can also improve the detection efficiency. Visit Wiki
HbpR Main Page-BBa_K1031300 HbpR is a σ54-dependent transcriptional factor, which may activate its promoter when 2-Hydroxybiphenol and 2-aminobiphenol’s binding. Tuning Pc constitutive promoter was insufficient for this biosensor, so the RBS library before reporter gene was constructed and remarkably improved the performance. Visit Wiki
NahF Main Page-BBa_K1031620 NahF is the salicylaldehyde dehydrogenase to transform salicylaldehyde into salicylic acid (salicylate) using NAD+. We tested NahF in E.coli and it showed that the NahF can work as an adaptor for biosensor NahR, meaning that NahF notably improve the performance and range of detection. Visit Wiki
Hybrid Promoter Main Page-BBa_K1031021 The hybrid promoter is constructed for the band-pass filter. A band-pass filter can be theoretically summarized as an incoherent feed forward loop, consisted of a positive loop and a negative loop. As for the reporter node, a special promoter is used so that the reporter should be controlled by the activator and inhibitor at the same time. Visit Wiki
NahR Main Page-BBa_K1031610 Pre-existing Part: Main Page-BBa_J61051 BBa_K1031610 is upgraded from previous part BBa_J61051 designed by Arkin Lab. NahR is a 34 kDa transcription factor mined from Pseudomonas putida which binds to nah and sal promoters to activate transcription in response to the inducer salicylate. We constructed a Psal/NahR biosensor circuit using sfGFP as reporter gene. Adaptor of this biosensor not only improves detection efficiency but also expands detection profile. Visit Wiki
Parts for Biosensors
DmpR BBa_K1031221 BBa_K1031222 BBa_K1031223 BBa_K1031224 are the RBS library of DmpR biosensor's reporter.
HbpR BBa_K1031300 is the coding sequence of HbpR with terminators. BBa_K1031301 and BBa_K1031302 are the RBS library of HbpR biosensor's reporter.
HcaR BBa_K1031410 is the coding sequence of HcaR with terminators. BBa_K1031441 BBa_K1031442 BBa_K1031443 and BBa_K1031444 are the Pc library of HbpR to tune its performance . BBa_K1031420 and BBa_K1031421 are the RBS library of HcaR biosensor's reporter.
CapR BBa_K1031100 is the coding sequence of CapR transcriptional factor. BBa_K1031111 and BBa_K1031112 are basic sensor construction with different CapR expression level. BBa_K1031113 and BBa_K1031114 are reporters with different RBS for the CapR biosensor.
HpaR BBa_K1031510 is the coding sequence of HpaR transcriptional factor. BBa_K1031520 and BBa_K1031521 are reporters with different RBS for the HpaR biosensor.
NahR BBa_K1031610 is the NahR biosensor circuit.
PaaX BBa_K1031710 is the coding sequence of PaaX with terminators. BBa_K1031742 BBa_K1031743 and BBa_K1031744 are the Pc library of PaaX.
XylS BBa_K1031911 is the coding sequence of XylS transcriptional factor with terminators. BBa_K1031912 BBa_K1031913 and BBa_K1031916 are the Pc library of XylS.
XylR BBa_K1031803 BBa_K1031804 are the RBS library of XylR biosensor's reporter.
Parts for Adaptors
NahF BBa_K1031620 is the coding sequence of XylS transcriptional factor with terminators. BBa_K1031621 BBa_K1031622 BBa_K1031623 BBa_K1031624 and BBa_K1031625are the Pc library of NahF.
Parts for Band-Pass Filter
BBa_K1031021 is the hybrid promoter for the reporter node, which can be activated as well as inhibited. BBa_K1031011 is the transcriptional factor that can activate its cognate promoter, which is used as the activate node in the band-pass filter. BBa_K1031013 BBa_K1031014 BBa_K1031015 BBa_K1031016 are RBS library to tune the expression of C1, under the control of pSal promoter, which is a crucial part for band-pass filter.
| Biosensors | NahR | XylS | HbpR | DmpR |
|---|---|---|---|---|
| NahR | Broader aromatics-sensing profiles with high induction ratio | Arg45→Thr |
SaA; 4-EtBzO; BzO; 2-MeBzO; 4-MeBzO | SaA; 4-EtBzO; BzO; 2-MeBzO; 4-MeBzO |
| XylS | Constitutive Pm promoter activation | Trp88→Leu |
Not mentioned, this mutant causes constitutive expression of Pm promoter | Not mentioned, this mutant causes constitutive expression of Pm promoter |
| HbpR | Broader aromatics-sensing profiles with lower induction ratios | Arg152→Gly |
BzO; 2-MeBzO; 2-,3-ClBzO; 2-,3- and 4-MeOBzO | BzO; 2-MeBzO; 2-,3-ClBzO; 2-,3- and 4-MeOBzO |
| DmpR | Arg41→His |
BzO; 3-MeBzO; 3-ClBzO; 3-BrBzO; 3-MeOBzO | Asp288→Val |
BzO; 3-MeBzO; 4-MeOBzO; 4-BrBzO; 2,4-MeBzO; 2,5-MeBzO; 3-ClBzO |
Favorite Parts
Improved Parts
Part List
Data Plot
