Difference between revisions of "Part:BBa K1033901"
 
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<partinfo>BBa_K1033901 short</partinfo>
 
<partinfo>BBa_K1033901 short</partinfo>
  
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This chromoprotein from the coral Montipora efflorescens, meffBlue, naturally exhibits strong color when expressed.
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This chromoprotein from the coral ''Montipora efflorescens'', meffBlue (also known as Rtms5), naturally exhibits strong color when expressed. The protein has an absorption maximum at 592 nm giving it a blue color visible to the naked eye. Compared to many other chromoproteins, such as amilCP (<partinfo>BBa_K592009</partinfo>), amilGFP (<partinfo>BBa_K592010</partinfo>), spisPink (<partinfo>BBa_K1033932</partinfo>), asPink (<partinfo>BBa_K1033933</partinfo>) and aeBlue (<partinfo>BBa_K864401</partinfo>), the color development is slower. The color is readily observed in both LB or on agar plates after 24-64 hours of incubation. The protein meffBlue has significant sequence homologies with proteins in the GFP family.
  
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===Usage and Biology===
 
===Usage and Biology===
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This part is useful as a reporter.
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===Source===
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''Montipora efflorescens''. The protein was first extracted and characterized by Beddoe et. al. under the name Rtms5 (UniProtKB/Swiss-Prot: P83690.2). This version is codon optimized for '' E coli'' by Genscript.
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===References===
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[http://scripts.iucr.org/cgi-bin/paper?cy0089] Beddoe, Travis, et al. "The production, purification and crystallization of a pocilloporin pigment from a reef-forming coral." Acta Crystallographica Section D: Biological Crystallography 59.3 (2003): 597-599.
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[http://www.sciencedirect.com/science/article/pii/S0969212603000285] Prescott, Mark, et al. "The 2.2 Å crystal structure of a pocilloporin pigment reveals a nonplanar chromophore conformation." Structure 11.3 (2003): 275-284.
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===Characterization===
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Team:NJTech_China 2022
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<Br>
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Hoping to make a useful contribution for future iGEM teams,we completed the experimental characterization of  existing parts tsPurple, purple chromoprotein(incl RBS) and meffBlue, blue chromoprotein and provided new documents for both of them.
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The meffBlue sequence (Part:BBa_K1033901) optimized for E. coli was incorporated into plasmid pET-29a(+), transformed into E. coli BL21 for characterization and measurement. We provided meffBlue with results and data based on protein expression and purification, TOF-Mass spectrometry,  and Swiss-model.
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Methods:
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SDS-PAGE, ultramicro spectrophotometer ,TOF-Mass Spectrometry, and Swiss-Model.
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Results:
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[[Image:meffBlue1.png|500px|center]]
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                                  Fig.1 The fermentation broth of meffBlue                Fig.2 Proteins after secondary ultrafiltration
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Conclusion: The cell pellet was collected by harvesting 50mL culture after 24h of induction followed by centrifugation at 4 degrees and 6000 rpm for 10min. Then, we performed ultrasonic disruption and collected the supernatant after centrifugation. The protein was purified and collected through ultrafiltration and affinity chromatography.
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[[Image:meffBlue-SDS-PAGE.png|500px|center]]
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                                                      Fig.3 SDS-PAGE of the chromoprotein meffBlue<Br>
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1· meffBlue- The culture without IPTG induction. <Br>
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2· meffBlue- Supernatant without IPTG induction after sonication.<Br>
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3· meffBlue- The sedimentation without IPTG induction and after sonication.<Br>
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4· meffBlue- Supernatant sample without IPTG induction after sonication.<Br>
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5· meffBlue- The sedimentation after IPTG induction and ultrasound.<Br>
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6· meffBlue- The culture after IPTG induction.<Br>
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7· meffBlue- Protein sample after the ultrafiltration (diluted 5 times).<Br>
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8. meffBlue- Protein after GST affinity chromatography.<Br>
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9· meffBlue- Purified protein sample.<Br>
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<Br>
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Conclusion: The protein gel preliminarily proved that the molecular mass of the meffBlue protein was correct, which is consistent with the expected molecular mass of meffBlue protein (the molecular mass of amajLime protein is about 26.3 kDa). Compared with lane 5, 6 and 7, lane 1, 2,3 and 4 indicate that more meffBlue protein can be obtained with IPTG induction. As is shown in lane 8, the concentration of protein was increased after ultrafiltration concentration. Lane 9 shows that the purification effect of protein after nickel affinity chromatography was better, and the impurity protein was less than before affinity chromatography. In conclusion, it can be seen that our expression and purification strategy is effective.
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[[Image:meffBlueT.png|500px|center]]
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                                          Fig. 4 concentration of the meffBlue protein samples<Br>
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Conclusion:We used the ultramicro spectrophotometer to measure the concentration of meffBlue protein. The concentration of meffBlue samples was 1.42mg/ml.
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[[Image:meffBlue_TOF_MS.png|500px|center]]
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                                                Fig.5 TOF MS of meffBlue.<Br>
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Conclusion: We performed a Time of Flight Mass Spectrometer on the purified HIS-tagged meffBlue protein. The predicted molecular mass of this protein is about 26.3KDa. The result of TOF-Mass Spectrometry showed that the specific molecular mass of meffBlue protein is 26.27Da (the value of the sharpest peak is shown as the molecular mass of meffBlue protein).
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<Br>
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<Br>
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Structural modeling results of the meffBlue protein based on Swiss-Model<Br>
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[[Image:swiss_model_meffBlue1.png|500px|center]]
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[[Image:swiss_model_meffBlue2.png|500px|center]]
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[[Image:swiss_model_meffBlue3.png|500px|center]]
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                                Fig.6-1 The results of the homology and structural modelling protein meffBlue.<Br>
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[[Image:swiss_model_3d.png|500px|center]]
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                                Fig.6-2 The 3D model of the homology and structural modelling protein meffBlue.<Br>
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<Br>
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Conclusion: We used Swiss-Model to simulate the three-dimensional structure of meffBlue protein. The above figures showed the modeling result of Swiss-Model.
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<Br>
  
 
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Latest revision as of 13:42, 12 October 2022

meffBlue, blue chromoprotein (incl RBS)

This chromoprotein from the coral Montipora efflorescens, meffBlue (also known as Rtms5), naturally exhibits strong color when expressed. The protein has an absorption maximum at 592 nm giving it a blue color visible to the naked eye. Compared to many other chromoproteins, such as amilCP (BBa_K592009), amilGFP (BBa_K592010), spisPink (BBa_K1033932), asPink (BBa_K1033933) and aeBlue (BBa_K864401), the color development is slower. The color is readily observed in both LB or on agar plates after 24-64 hours of incubation. The protein meffBlue has significant sequence homologies with proteins in the GFP family.

Usage and Biology

This part is useful as a reporter.

Source

Montipora efflorescens. The protein was first extracted and characterized by Beddoe et. al. under the name Rtms5 (UniProtKB/Swiss-Prot: P83690.2). This version is codon optimized for E coli by Genscript.

References

[http://scripts.iucr.org/cgi-bin/paper?cy0089] Beddoe, Travis, et al. "The production, purification and crystallization of a pocilloporin pigment from a reef-forming coral." Acta Crystallographica Section D: Biological Crystallography 59.3 (2003): 597-599.

[http://www.sciencedirect.com/science/article/pii/S0969212603000285] Prescott, Mark, et al. "The 2.2 Å crystal structure of a pocilloporin pigment reveals a nonplanar chromophore conformation." Structure 11.3 (2003): 275-284.


Characterization

Team:NJTech_China 2022
Hoping to make a useful contribution for future iGEM teams,we completed the experimental characterization of existing parts tsPurple, purple chromoprotein(incl RBS) and meffBlue, blue chromoprotein and provided new documents for both of them. The meffBlue sequence (Part:BBa_K1033901) optimized for E. coli was incorporated into plasmid pET-29a(+), transformed into E. coli BL21 for characterization and measurement. We provided meffBlue with results and data based on protein expression and purification, TOF-Mass spectrometry, and Swiss-model.

Methods: SDS-PAGE, ultramicro spectrophotometer ,TOF-Mass Spectrometry, and Swiss-Model.

Results:

MeffBlue1.png
                                  Fig.1 The fermentation broth of meffBlue                Fig.2 Proteins after secondary ultrafiltration

Conclusion: The cell pellet was collected by harvesting 50mL culture after 24h of induction followed by centrifugation at 4 degrees and 6000 rpm for 10min. Then, we performed ultrasonic disruption and collected the supernatant after centrifugation. The protein was purified and collected through ultrafiltration and affinity chromatography.

MeffBlue-SDS-PAGE.png
                                                     Fig.3 SDS-PAGE of the chromoprotein meffBlue

1· meffBlue- The culture without IPTG induction.
2· meffBlue- Supernatant without IPTG induction after sonication.
3· meffBlue- The sedimentation without IPTG induction and after sonication.
4· meffBlue- Supernatant sample without IPTG induction after sonication.
5· meffBlue- The sedimentation after IPTG induction and ultrasound.
6· meffBlue- The culture after IPTG induction.
7· meffBlue- Protein sample after the ultrafiltration (diluted 5 times).
8. meffBlue- Protein after GST affinity chromatography.
9· meffBlue- Purified protein sample.

Conclusion: The protein gel preliminarily proved that the molecular mass of the meffBlue protein was correct, which is consistent with the expected molecular mass of meffBlue protein (the molecular mass of amajLime protein is about 26.3 kDa). Compared with lane 5, 6 and 7, lane 1, 2,3 and 4 indicate that more meffBlue protein can be obtained with IPTG induction. As is shown in lane 8, the concentration of protein was increased after ultrafiltration concentration. Lane 9 shows that the purification effect of protein after nickel affinity chromatography was better, and the impurity protein was less than before affinity chromatography. In conclusion, it can be seen that our expression and purification strategy is effective.

MeffBlueT.png
                                          Fig. 4 concentration of the meffBlue protein samples

Conclusion:We used the ultramicro spectrophotometer to measure the concentration of meffBlue protein. The concentration of meffBlue samples was 1.42mg/ml.

MeffBlue TOF MS.png
                                               Fig.5 TOF MS of meffBlue.

Conclusion: We performed a Time of Flight Mass Spectrometer on the purified HIS-tagged meffBlue protein. The predicted molecular mass of this protein is about 26.3KDa. The result of TOF-Mass Spectrometry showed that the specific molecular mass of meffBlue protein is 26.27Da (the value of the sharpest peak is shown as the molecular mass of meffBlue protein).

Structural modeling results of the meffBlue protein based on Swiss-Model

Swiss model meffBlue1.png
Swiss model meffBlue2.png
Swiss model meffBlue3.png
                               Fig.6-1 The results of the homology and structural modelling protein meffBlue.
Swiss model 3d.png
                               Fig.6-2 The 3D model of the homology and structural modelling protein meffBlue.


Conclusion: We used Swiss-Model to simulate the three-dimensional structure of meffBlue protein. The above figures showed the modeling result of Swiss-Model.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]