Team:Valencia/Parts

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Ucp1 is a gene which encodes for UCP1 protein.
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<html><link rel="stylesheet" href="https://2008.igem.org/wiki/index.php?title=User:Joadelas/valencia.css&action=raw&ctype=text/css" type="text/css"></html>
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__NOTOC__
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{{Valencia/Menu}}
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{{Valencia/Menu_Parts}}
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The uncoupling protein UCP1 is a proton carrier characteristic of brown adipose tissue.
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<div class="valenciaMain">
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UCP1 uncouples the respiratory chain  of ATP production, converting the metabolic energy in heat.
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<center>
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<div style=" width:94%; margin: 0 auto;">
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{|
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==Construction of Valencia Team Biobricks==
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|[[Image:function.jpg|400px]]
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|}
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</center>
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===Preparing inserts===
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UCP1 is a 33kd protein which is  exclusively located in the brown adipocites.
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Total DNA was extracted from our yeast strains.<br>
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It is an  integral protein present in inner mitocondrial membrane.
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UCP-1 was amplified by PCR using oligonucleotides matching the sequence and bearing the appropriate Biobrick prefix and suffix.<br>
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The protein has a tripartite structure. The structure displays an around 100 residues region  which  is three times repeated. Each part encodes for two transmembrane segments and one long hydrophilic loop.The functional carrier unit is an homodimer.
 
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<center>
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Primers' sequences (EcoRI and PstI sites in bold):<br>
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{|
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Forward: 5' '''gAATTC'''gCggCCgCTTCTAgATggTgAgTTCgACAACTTC 3';<br>   
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|[[Image:Structure.jpg|400px]]
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Reverse: 5' TACTAgTAgCggCCg'''CTgCAg'''CTATgTggTgCAgTCCACTg 3' <br>
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|}
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</center>
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PCR was conducted as follows:<br>
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The main  difference between UCP1 and  most of the proteins with a nuclear codification is  the    lack of the importation targeting to the mitochondria in UCP+ proteins.
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<ol>A first denaturation cycle
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The condition that determines the mitochondria as the protein target lays in the first loop which protudes in the mitochondrial matrix.
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<ol>94º 3'</ol>
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Followed by 30 amplification cycles:
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<ol>94º 30''
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60º 1' 30''
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72º 1'</ol>
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And a final extension step:
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<ol>72º 10'</ol>
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</ol>
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The second loop of the matrix is essential for the insertion of the protein in the inner mitochondrial matrix.
 
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Purine nucleotides act as  inhibitors of protein activity and  esterificated fatty acids act as  inductors.
 
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'''Results:'''<br>
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[[Image:Valencia_PCRresults.jpg]]<br>
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Intense amplicons, of the expected size, (about 1 kb) were produced for UCP-1, 175-deleted and 76 deleted. <br>
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Amplicons were digested (H buffer) with EcoRI y PstI.<br>
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===Preparing vectors===
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Competent cells were transformed with: pSB1AK3 and pUC18 plasmids <br>
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{|align="justify"
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Plasmids were extracted (High pure miniprep plasmid isolation kit ROCHE) <br>
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|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
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Plasmid were digested with EcoRI and PstI<br>
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|[[Image:Example_logo.png|200px|right|frame]]
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|-
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|
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''Tell us more about your project.  Give us background.  Use this is the abstract of your project.  Be descriptive but concise (1-2 paragraphs)''
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|[[Image:Team.png|right|frame|Your team picture]]
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|-
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|
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|align="center"|[[Team:Valencia | Team Example 2]]
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|}
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<!--- The Mission, Experiments --->
 
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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
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===Ligating Biobricks into plasmids===
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!align="center"|[[Team:Valencia|Home]]
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!align="center"|[[Team:Valencia/Team|The Team]]
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!align="center"|[[Team:Valencia/Project|The Project]]
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!align="center"|[[Team:Valencia/Parts|Parts Submitted to the Registry]]
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!align="center"|[[Team:Valencia/Modeling|Modeling]]
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!align="center"|[[Team:Valencia/Notebook|Notebook]]
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|}
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(''Or you can choose different headings.  But you must have a team page, a project page, and a notebook page.'')
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Both plasmids and inserts were run into 0.8% 0.5X TBE agarose gels and DNA bands excised with a clean scalpel. DNA was extracted from agarose blocks (ultra clean gel spin, DNA purification Kit, MO BIO laboratories).<br>
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T4 Ligase was used to ligate inserts and vectors for 1 h at room temperature (2X quick buffer was used).<br>
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Competent cells were transformed and resulting colonies (Amp LB) screened with Fw and Rv primers to confirm the presence of inserts. <br>
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pSB1AK3 containing UCP-1, 175-deleted and 76-deleted were sent to the Registry <br>
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===Note===
 
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If you choose to include a '''Parts Submitted to the Registry''' page, please list your parts here.  This is not necessary but it may be a nice list to keep track of.
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</div>
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</div>

Latest revision as of 18:35, 29 October 2008



Construction of Valencia Team Biobricks

Preparing inserts

Total DNA was extracted from our yeast strains.
UCP-1 was amplified by PCR using oligonucleotides matching the sequence and bearing the appropriate Biobrick prefix and suffix.


Primers' sequences (EcoRI and PstI sites in bold):
Forward: 5' gAATTCgCggCCgCTTCTAgATggTgAgTTCgACAACTTC 3';
Reverse: 5' TACTAgTAgCggCCgCTgCAgCTATgTggTgCAgTCCACTg 3'


PCR was conducted as follows:

    A first denaturation cycle
      94º 3'

    Followed by 30 amplification cycles:

      94º 30 60º 1' 30 72º 1'

    And a final extension step:

      72º 10'


Results:

Valencia PCRresults.jpg
Intense amplicons, of the expected size, (about 1 kb) were produced for UCP-1, 175-deleted and 76 deleted.
Amplicons were digested (H buffer) with EcoRI y PstI.

Preparing vectors

Competent cells were transformed with: pSB1AK3 and pUC18 plasmids


Plasmids were extracted (High pure miniprep plasmid isolation kit ROCHE)
Plasmid were digested with EcoRI and PstI


Ligating Biobricks into plasmids

Both plasmids and inserts were run into 0.8% 0.5X TBE agarose gels and DNA bands excised with a clean scalpel. DNA was extracted from agarose blocks (ultra clean gel spin, DNA purification Kit, MO BIO laboratories).
T4 Ligase was used to ligate inserts and vectors for 1 h at room temperature (2X quick buffer was used).
Competent cells were transformed and resulting colonies (Amp LB) screened with Fw and Rv primers to confirm the presence of inserts.
pSB1AK3 containing UCP-1, 175-deleted and 76-deleted were sent to the Registry



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