Difference between revisions of "Part:BBa K165006:Experience"

 
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===User Reviews===
 
===User Reviews===
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[[Image:HivC-pic.PNG|left|x327px]]HivC was produced in E.coli BL21(De3)pLysS and further purified. For isolation, purification and experimental purposes, we deposited a modified variant of HivC termed cCFP_link_HivC (BBa_K323071). Above figure presents SDS-page and Western blot for cCFP_link_HivC. Arrows on both figures indicate cCFP_link_HivC (22.164 kDa). Molecular weight was determined in silico, using sequence and ProtParam online tool.
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[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS  Check out the protocol on Team Slovenia iGEM 2010 web site]
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== Circular dichroism spectroscopy: ==
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[[Image:HIVCCD.jpg|right|x227px]]
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Circular dichroism is a method that refers to the differential absorption of left and right circularly polarized light, a phenomenon exhibited in the absorption bands of optically active chiral molecules. Circular dichroism spectroscopy is usually used after protein purification to determine its secondary structure. Using CD spectroscopy we showed (figure below) that cCFP_link_HivC refolds mostly in α-helical structure and some random coil.
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[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS  Check out the protocol on Team Slovenia iGEM 2010 web site]
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== Surface plasmon resonance: ==
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[[Image:HivCspr.jpg|left|x280px]]
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Surface plasmon resonance is a method used for qualitative and quantitive analysis of molecular interactions, in our case binding of zinc fingers to DNA. We used surface plasmon resonance to demonstrate if cCFP_link_HivC binds specifically to its target DNA sequence. Figure below implays specific binding of HivC to target DNA.
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[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS  Check out the protocol on Team Slovenia iGEM 2010 web site]
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== Electrophoretic mobility shift assay (EMSA): ==
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[[Image:HIVCEmsa.png|right]]
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Principle of EMSA assay is a shift in DNA mobility as a result of protein binding. This shift can be observed under UV light after running samples of DNA with protein in agarose gel stained with ethidium bromide. EMSA proved that cCFP_link_HivC binds to its binding site. Test was repeated using three different quantities of target DNA. The control lane (DNA without proteins) contains a single band of target DNA, whereas a sample containing target DNA and HivC contains a band shifted upwards, because target DNA with bound HivC travels slower in agarose gel.
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standard    500ng    750ng    1000ng      standard  negative control
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Revision as of 16:49, 26 October 2010

This experience page is provided so that any user may enter their experience using this part.
Please enter how you used this part and how it worked out.

Applications of BBa_K165006

User Reviews

HivC-pic.PNG
HivC was produced in E.coli BL21(De3)pLysS and further purified. For isolation, purification and experimental purposes, we deposited a modified variant of HivC termed cCFP_link_HivC (BBa_K323071). Above figure presents SDS-page and Western blot for cCFP_link_HivC. Arrows on both figures indicate cCFP_link_HivC (22.164 kDa). Molecular weight was determined in silico, using sequence and ProtParam online tool.

[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS Check out the protocol on Team Slovenia iGEM 2010 web site]


Circular dichroism spectroscopy:

HIVCCD.jpg

Circular dichroism is a method that refers to the differential absorption of left and right circularly polarized light, a phenomenon exhibited in the absorption bands of optically active chiral molecules. Circular dichroism spectroscopy is usually used after protein purification to determine its secondary structure. Using CD spectroscopy we showed (figure below) that cCFP_link_HivC refolds mostly in α-helical structure and some random coil.

[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS Check out the protocol on Team Slovenia iGEM 2010 web site]

Surface plasmon resonance:

HivCspr.jpg

Surface plasmon resonance is a method used for qualitative and quantitive analysis of molecular interactions, in our case binding of zinc fingers to DNA. We used surface plasmon resonance to demonstrate if cCFP_link_HivC binds specifically to its target DNA sequence. Figure below implays specific binding of HivC to target DNA.

[http://2010.igem.org/Team:Slovenia/METHODS_and_PARTS Check out the protocol on Team Slovenia iGEM 2010 web site]


Electrophoretic mobility shift assay (EMSA):

HIVCEmsa.png

Principle of EMSA assay is a shift in DNA mobility as a result of protein binding. This shift can be observed under UV light after running samples of DNA with protein in agarose gel stained with ethidium bromide. EMSA proved that cCFP_link_HivC binds to its binding site. Test was repeated using three different quantities of target DNA. The control lane (DNA without proteins) contains a single band of target DNA, whereas a sample containing target DNA and HivC contains a band shifted upwards, because target DNA with bound HivC travels slower in agarose gel.

standard 500ng 750ng 1000ng standard negative control











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