Difference between revisions of "Part:BBa K2387001"

(→‎Functional Parameters)
(→‎Usage and Biology)
 
(7 intermediate revisions by the same user not shown)
Line 4: Line 4:
  
 
   
 
   
−
In this composite, the coding sequence for anm2CP is under the control of the inducible pBad/araC promoter (BBa_I0500), as well as a strong RBS (BBa_B0034).  
+
In this composite, the coding sequence for anm2CP is under the control of the inducible pBad/araC promoter (<partinfo>BBa_I0500</partinfo>), as well as a strong RBS (<partinfo>BBa_B0034</partinfo>).  
  
 
===Usage and Biology===
 
===Usage and Biology===
  
−
anm2CP is a <b>monomeric</b> chromoprotein (BBa_K2387000), the only one that is known to be produced in nature. The sequence can be retrived from the genome of the jellyfish Anthomedusae sp. SL-2003 (GenBank, AY485336). It shows a bright pink color when expressed to sufficient concentrations. Its absorbance spectrum shows a pick with a maximum at 572 nm. As other fluorescent proteins and chromoproteins, it has a structure similar to that of GFP, as it can be observed from the structure of KillerRed (PSB 2WIQ) a fluorescent protein evolved from anm2CP. Most chromoproteins are tetrameric, which makes them a bad candidate for <b>protein fusions</b> and other applications. Among other applications, anm2CP would be able to be <b>split</b> in order to be used in bimolecular complementation techniques.
+
anm2CP is a <b>monomeric</b> chromoprotein (<partinfo>BBa_K2387000</partinfo>), the only one that is known to be produced in nature. The sequence belongs to the jellyfish Anthomedusae sp. SL-2003 (GenBank, [https://www.ncbi.nlm.nih.gov/nuccore/AY485336.1 AY485336]). It shows a bright pink color when expressed to sufficient concentrations (Figure 1). Its absorbance spectrum shows a pick with a maximum at 572 nm. As other fluorescent proteins and chromoproteins, it has a structure similar to that of GFP, as it can be observed from the structure of KillerRed ([http://www.rcsb.org/pdb/explore.do?structureId=2wiq PDB 2WIQ]) a fluorescent protein evolved from anm2CP. Most chromoproteins are tetrameric, which makes them a bad candidate for <b>protein fusions</b> and other applications. Among other applications, anm2CP would be able to be <b>split</b> in order to be used in bimolecular complementation techniques.
  
−
[[file:Anm2CP.jpeg|400px|center|thumb|<p align="justify">'''Figure 1: On the left, E. coli BL21 without plasmid. On the right, E. coli BL21 expressing anm2CP induced by 0.2% arabinose.'''</p>]]
+
[[file:Anm2CP.jpeg|400px|center|thumb|<p align="justify">'''Figure 1: On the left, <i>E. coli</i> BL21 without plasmid. On the right, E. coli BL21 expressing anm2CP induced by 0.2% arabinose.'''</p>]]
  
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
Line 20: Line 20:
 
The spectrum of absorbance for anm2CP was determined (Figure 2). It shows a clear pick with a maximum of absorbance at 572, which grants the chromoprotein the bright pink color. The spectrum is compared to that one of BL21 without plasmid (Figure 3), which serves as a negative control. The spectrum of <i>E. coli</i> BL21 was subtracted from the spectrum of anm2CP to remove the effect of other proteins and impurities(Figure 4). The comparison in the absorbance at 572 nm shows a clear difference between <i>E. coli</i> BL21 without plasmid and <i>E. coli</i> BL21 expressing anm2CP  (Figure 5). This difference can be used to compared different levels of functional anm2CP in the cell.  
 
The spectrum of absorbance for anm2CP was determined (Figure 2). It shows a clear pick with a maximum of absorbance at 572, which grants the chromoprotein the bright pink color. The spectrum is compared to that one of BL21 without plasmid (Figure 3), which serves as a negative control. The spectrum of <i>E. coli</i> BL21 was subtracted from the spectrum of anm2CP to remove the effect of other proteins and impurities(Figure 4). The comparison in the absorbance at 572 nm shows a clear difference between <i>E. coli</i> BL21 without plasmid and <i>E. coli</i> BL21 expressing anm2CP  (Figure 5). This difference can be used to compared different levels of functional anm2CP in the cell.  
  
−
[[File:Anm2CPSpectrum.jpeg|400px|center|thumb|<p align="justify">'''Figure 2: Absorbance spectrum of anm2CP'''</p>]]
+
[[File:Anm2CPSpectrum.jpeg|500px|center|thumb|<p align="justify">'''Figure 2: Absorbance spectrum of anm2CP'''</p>]]
  
−
[[File:BL21Spectrum.jpeg|400px|center|thumb|<p align="justify">'''Figure 3: Absorbance spectrum of empty <i>E. coli</i> BL21.'''</p>]]
+
[[File:BL21Spectrum.jpeg|500px|center|thumb|<p align="justify">'''Figure 3: Absorbance spectrum of empty <i>E. coli</i> BL21.'''</p>]]
  
−
[[File:Anm2CPSpectrumCorrected.jpeg|400px|center|thumb|<p align="justify">'''Figure 4: Absorbance spectrum of anm2CP corrected with the spectrum of empty <i>E. coli</i> BL21.'''</p>]]
+
[[File:Anm2CPSpectrumCorrected.jpeg|500px|center|thumb|<p align="justify">'''Figure 4: Absorbance spectrum of anm2CP corrected with the spectrum of empty <i>E. coli</i> BL21.'''</p>]]
  
−
[[File:Absorbanceanm2CP.jpeg|400px|center|thumb|<p align="justify">'''Figure 5: Absorbance difference at 572 nm between empty <i>E. coli</i> BL21 and <i>E. coli</i> BL21 expressing anm2CP.'''</p>]]
+
[[File:Absorbanceanm2CP.jpeg|500px|center|thumb|<p align="justify">'''Figure 5: Absorbance difference at 572 nm between empty <i>E. coli</i> BL21 and <i>E. coli</i> BL21 expressing anm2CP.'''</p>]]
  
 
===Methods===
 
===Methods===

Latest revision as of 14:59, 13 October 2017


Monomeric chromoprotein anm2CP controlled by inducible araC/pBAD promoter


In this composite, the coding sequence for anm2CP is under the control of the inducible pBad/araC promoter (BBa_I0500), as well as a strong RBS (BBa_B0034).

Usage and Biology

anm2CP is a monomeric chromoprotein (BBa_K2387000), the only one that is known to be produced in nature. The sequence belongs to the jellyfish Anthomedusae sp. SL-2003 (GenBank, AY485336). It shows a bright pink color when expressed to sufficient concentrations (Figure 1). Its absorbance spectrum shows a pick with a maximum at 572 nm. As other fluorescent proteins and chromoproteins, it has a structure similar to that of GFP, as it can be observed from the structure of KillerRed ([http://www.rcsb.org/pdb/explore.do?structureId=2wiq PDB 2WIQ]) a fluorescent protein evolved from anm2CP. Most chromoproteins are tetrameric, which makes them a bad candidate for protein fusions and other applications. Among other applications, anm2CP would be able to be split in order to be used in bimolecular complementation techniques.

Figure 1: On the left, E. coli BL21 without plasmid. On the right, E. coli BL21 expressing anm2CP induced by 0.2% arabinose.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 1205
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 1280
    Illegal BamHI site found at 1144
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 979
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI site found at 961

Absorbance Parameters

The spectrum of absorbance for anm2CP was determined (Figure 2). It shows a clear pick with a maximum of absorbance at 572, which grants the chromoprotein the bright pink color. The spectrum is compared to that one of BL21 without plasmid (Figure 3), which serves as a negative control. The spectrum of E. coli BL21 was subtracted from the spectrum of anm2CP to remove the effect of other proteins and impurities(Figure 4). The comparison in the absorbance at 572 nm shows a clear difference between E. coli BL21 without plasmid and E. coli BL21 expressing anm2CP (Figure 5). This difference can be used to compared different levels of functional anm2CP in the cell.

Figure 2: Absorbance spectrum of anm2CP

Figure 3: Absorbance spectrum of empty E. coli BL21.

Figure 4: Absorbance spectrum of anm2CP corrected with the spectrum of empty E. coli BL21.

Figure 5: Absorbance difference at 572 nm between empty E. coli BL21 and E. coli BL21 expressing anm2CP.

Methods

  • Incubate cells overnight with chloramphenicol and 0.2% Arabinose.
  • Lyse cells using a method that does not denature proteins (e.g. enzymatic lysis or sonication).
  • Measure absorbance in lysate

References

  • Dmitry A. Shagin, Ekaterina V. Barsova, Yurii G. Yanushevich, Arkady F. Fradkov, Konstantin A. Lukyanov, Yulii A. Labas, Tatiana N. Semenova, Juan A. Ugalde, Ann Meyers, Jose M. Nunez, Edith A. Widder, Sergey A. Lukyanov, Mikhail V. Matz. (2004) GFP-like Proteins as Ubiquitous Metazoan Superfamily: Evolution of Functional Features and Structural Complexity, Molecular Biology and Evolution, 21(5) 841–850. https://doi.org/10.1093/molbev/msh079
  • Bulina, M. E., Chudakov, D. M., Britanova, O. V, Yanushevich, Y. G., Staroverov, D. B., Chepurnykh, T. V, … Lukyanov, K. A. (2006). A genetically encoded photosensitizer. Nat Biotech, 24(1), 95–99. http://dx.doi.org/10.1038/nbt1175