Difference between revisions of "Part:BBa K2257006"
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<partinfo>BBa_K2257006 short</partinfo> | <partinfo>BBa_K2257006 short</partinfo> | ||
| − | <p>SQR is a NAD(P)/FAD-dependent oxidoreductase, which oxidizes S2- to zero-valent S0. SqrR, encoded by <em>sqrR</em>, is a constitutively expressed suppressor protein of <em>sqr</em> promotor. RFP is the indicator. When there is no H2S in the environment, SqrR combines with the <em>sqr</em> promotor and keeps the expression of both the enzyme and RFP at a low level. While in the case where H2S exists, it will be oxidized by the small amount of expressed enzyme, and the product will interact with SqrR, forming a tri- or tetrasulfide cross-links linking C41 and C107 on the same subunit of SqrR. The change in the structure of SqrR makes it fall off from the <em>sqr</em> promotor and thus the expression of SQR and RFP turns on. The part can be used to detect hydrogen sulfide at a μmol level.</p> | + | <p><font size="+1"><font face="Courier New, Courier, monospace">SQR is a NAD(P)/FAD-dependent oxidoreductase, which oxidizes S2- to zero-valent S0. SqrR, encoded by <em>sqrR</em>, is a constitutively expressed suppressor protein of <em>sqr</em> promotor. RFP is the indicator. When there is no H2S in the environment, SqrR combines with the <em>sqr</em> promotor and keeps the expression of both the enzyme and RFP at a low level. While in the case where H2S exists, it will be oxidized by the small amount of expressed enzyme, and the product will interact with SqrR, forming a tri- or tetrasulfide cross-links linking C41 and C107 on the same subunit of SqrR. The change in the structure of SqrR makes it fall off from the <em>sqr</em> promotor and thus the expression of SQR and RFP turns on. The part can be used to detect hydrogen sulfide at a μmol level.</font></font></p> |
| − | + | <!-- Add more about the biology of this part here--> | |
| − | <!-- Add more about the biology of this part here | + | |
===Usage and Biology=== | ===Usage and Biology=== | ||
| + | <h1><font color="#00FFCC">Design</font></h1> | ||
| + | <p><font size="+1">As to the hydrogen sulfide sensor, we also designed a whole-cell biocatalytic system, displaying the concentration of hydrogen sulfide by the compound’s influence on specific genes’ expression in modified E.coli. Our idea is inspired from a type of bacterium that can live on sulfide.</font></p> | ||
| + | [[File:T-Nanjing-China-h2s-2.png|600px|thumb|center]] | ||
| + | <h1><font color="#00FFCC">Experiments</font></h1> | ||
| + | <p><font size="+1">A plate sensitive assay measuring S2– tolerance of E. coli cells with constructed probe pathway. All plates were incubated at 37℃ for 18 h before being read. No significant influence appeared to the growth of E. coli at a concentration lower than 10mmol/L.</font></p> | ||
| + | [[File:T-Nanjing-China-h2s-4.jpg|600px|thumb|center|Figure 1.]] | ||
| + | |||
| + | <p><font size="+1">We analysised the product by dual-enzyme digestion and electrophoresis.</font></p> | ||
| + | |||
| + | <p>[[File:T-Nanjing-China-h2s-5.png|600px|thumb|center|Figure 2.Whole-cell sequence dual-enzyme digestion]]</p> | ||
| − | <p> | + | <p><font size="+1">RFP responsiveness of the detector system. Cells were grown to midlog phase under aerobic conditions and 0 ~ 250 μM Na2S. Cells were harvest after 17h and assayed for fluorescence intensity. Error bars indicate SD of the mean.</font></p> |
| − | + | [[File:T-Nanjing-China-h2s-10.png|800px|thumb|center|Figure 2.a)RFP responsiveness of the detector system.<br /> | |
| − | [[File:Nanjing-China h2s- | + | b) A visible photograph of a).<br /> |
| + | c) Test of selectivity.]] | ||
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<span class='h3bb'>Sequence and Features</span> | <span class='h3bb'>Sequence and Features</span> | ||
<partinfo>BBa_K2257006 SequenceAndFeatures</partinfo> | <partinfo>BBa_K2257006 SequenceAndFeatures</partinfo> | ||
| + | <p>The leading role in the system is a repressor protein called sqrR. Itinhibits the expression of Sqr via its binding to the promoter region of sqr. Sqr is a protein that oxidizes minus-two-valent S to zero-valent S.With the presence of hydrogen sulfide, the oxidized S can interact with the sqrR that is binding to the Psqr, forming a tetrasulfide bond and terminating the inhibition. <br/> | ||
| + | In our design, we use red fluorescent protein as the indicator.When hydrogen sulfide exits, the gene transcription is activated, and the bacteria turns red. </p> | ||
<!-- Uncomment this to enable Functional Parameter display | <!-- Uncomment this to enable Functional Parameter display | ||
Latest revision as of 04:34, 28 October 2017
hydrogen sulfide sensor sequence
SQR is a NAD(P)/FAD-dependent oxidoreductase, which oxidizes S2- to zero-valent S0. SqrR, encoded by sqrR, is a constitutively expressed suppressor protein of sqr promotor. RFP is the indicator. When there is no H2S in the environment, SqrR combines with the sqr promotor and keeps the expression of both the enzyme and RFP at a low level. While in the case where H2S exists, it will be oxidized by the small amount of expressed enzyme, and the product will interact with SqrR, forming a tri- or tetrasulfide cross-links linking C41 and C107 on the same subunit of SqrR. The change in the structure of SqrR makes it fall off from the sqr promotor and thus the expression of SQR and RFP turns on. The part can be used to detect hydrogen sulfide at a μmol level.
Usage and Biology
Design
As to the hydrogen sulfide sensor, we also designed a whole-cell biocatalytic system, displaying the concentration of hydrogen sulfide by the compound’s influence on specific genes’ expression in modified E.coli. Our idea is inspired from a type of bacterium that can live on sulfide.
Experiments
A plate sensitive assay measuring S2– tolerance of E. coli cells with constructed probe pathway. All plates were incubated at 37℃ for 18 h before being read. No significant influence appeared to the growth of E. coli at a concentration lower than 10mmol/L.
We analysised the product by dual-enzyme digestion and electrophoresis.
RFP responsiveness of the detector system. Cells were grown to midlog phase under aerobic conditions and 0 ~ 250 μM Na2S. Cells were harvest after 17h and assayed for fluorescence intensity. Error bars indicate SD of the mean.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal XhoI site found at 1373
Illegal XhoI site found at 1574
Illegal XhoI site found at 2261
Illegal XhoI site found at 2375
Illegal XhoI site found at 2573 - 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000INCOMPATIBLE WITH RFC[1000]Illegal BsaI.rc site found at 1304
The leading role in the system is a repressor protein called sqrR. Itinhibits the expression of Sqr via its binding to the promoter region of sqr. Sqr is a protein that oxidizes minus-two-valent S to zero-valent S.With the presence of hydrogen sulfide, the oxidized S can interact with the sqrR that is binding to the Psqr, forming a tetrasulfide bond and terminating the inhibition.
In our design, we use red fluorescent protein as the indicator.When hydrogen sulfide exits, the gene transcription is activated, and the bacteria turns red.