Team:Freiburg/Notebook/10 June

From 2011.igem.org

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=='''??.Labday'''==
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{{:Team:Freiburg/Templates/header}}
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<a href="https://2011.igem.org/Team:Freiburg/Notebook/9_June">Previous entry</a>
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<div id="notebook-title">
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<a href="https://2011.igem.org/Team:Freiburg/Notebook"> 10 June </a>
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<a href="https://2011.igem.org/Team:Freiburg/Notebook/11_June">Next entry</a>
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==Miniprep==
==Miniprep==
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Miniprep of parts from 8th of june and DNA concentration was measured with NanoDrop 2000c.
Miniprep of parts from 8th of june and DNA concentration was measured with NanoDrop 2000c.
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{{:Team:Freiburg/Templates/footer}}
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==3A-assembly: Digestion==
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'''Investigators: Sophie, Theo, Sandra'''
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==Protein modelling==
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Digestion of RBS and promotor to create a promotor-RBS library.
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{| cellpadding="10" cellspacing="0" border="1"
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|
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|sample
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|name
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|-
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|Promotor
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|BBa_J23104
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|S1
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|-
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|Promotor
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|BBa_J23110
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|S2
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|-
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|Promotor
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|BBa_J23116
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|S3
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|-
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|RBS
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|BBa_B0034
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|S4
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|-
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|RBS
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|BBa_B0032
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|S5
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|-
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|RBS
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|BBa_B0031
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|S6
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|-
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|Vector
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|pSB1C3
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|S7
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|}
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Enzymes used for digestion:
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{| cellpadding="10" cellspacing="0" border="1"
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|
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|enzyme 1
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|enzyme 2
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|-
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|promotor (S1-S3)
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|EcoRI
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|SpeI
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|-
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|RBS (S4-S6)
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|Xbal
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|PstI
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|-
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|Vector (S7)
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|EcoRI
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|PstI
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|}
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<br/>
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==<span style="color:grey;">Protein modelling for the precipitator</span>==
'''Investigators: Rüdiger'''
'''Investigators: Rüdiger'''

Latest revision as of 01:18, 22 September 2011


This is the wiki page
of the Freiburger student
team competing for iGEM 2011.
Thank you for your interest!

Miniprep

Investigators: Jakob, Julia


Comments: Trafo was performed on 8th of june and plates were incubated over night at 37°C. Clones were picked to do a miniprep.


Miniprep of parts from 8th of june and DNA concentration was measured with NanoDrop 2000c.

                       

3A-assembly: Digestion

Investigators: Sophie, Theo, Sandra

Digestion of RBS and promotor to create a promotor-RBS library.


sample name
Promotor BBa_J23104 S1
Promotor BBa_J23110 S2
Promotor BBa_J23116 S3
RBS BBa_B0034 S4
RBS BBa_B0032 S5
RBS BBa_B0031 S6
Vector pSB1C3 S7


Enzymes used for digestion:

enzyme 1 enzyme 2
promotor (S1-S3) EcoRI SpeI
RBS (S4-S6) Xbal PstI
Vector (S7) EcoRI PstI


Protein modelling for the precipitator

Investigators: Rüdiger


3cvr bacterial ligase


FSELQLNRLNLSSLPDNLPPQ

ITVLEITQNALISLPELPAS

LEYLDACDNRLSTLPELPAS

LKHLDVDNNQLTXLPELPAL

LEYINADNNQLTXLPELPTS

LEVLSVRNNQLTFLPELPES

EIFFRCRENRITHIPENILSLDP


Extracted ideal consensus, by consensus sequence and 3d rational analysis:

LEVLDVSNNQLTSLPDNLPAS


N-Terminal Hagfish 2z66 CPSRCSCSGTEIRCNSKGLTSVPTGIPSSATRLELESNKLQSLPHGVFDK LTQLTK Consensus: xLxxLxxLxL C-Terminal Hagfish 2z62 LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP LxxLxLxxNxLx Consensus


Sequences 1-6 sent to I-Tasser for 3D structure prediction: Rational1: LxALHCSxNxLxSLPxxLPxx LxHLACSxNxLxSLPxxLPxx

CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LTALHKSNNQLTSLPDNLPAS LEHLAVSNNQLTSLPDNLPAS LEALHVSNNQLTSLPDNLPAS LEHLAVSNNQLTSLPDNLPAS LEALHVSNNQLTSLPDNLPAS LEHLAVSNNQLTSLPDNLPAS LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP


Rational2: LxxLxCSxNHLHSLPxxLPxx


CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LTQLTKSNNHLHSLPDNLPAS LEVLDVSNNHLHSLPDNLPAS LEVLDVSNNHLHSLPDNLPAS LEVLDVSNNHLHSLPDNLPAS LEVLDVSNNHLHSLPDNLPAS LEVLDVSNNHLHSLPDNLPAS LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP


Rational3: LxxLxCSxNxLxSLPHHLPxx

CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LTQLTKSNNQLTSLPHHLPAS LEVLDVSNNQLTSLPHHLPAS LEVLDVSNNQLTSLPHHLPAS LEVLDVSNNQLTSLPHHLPAS LEVLDVSNNQLTSLPHHLPAS LEVLDVSNNQLTSLPHHLPAS LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP


Rational4: LxxLxCSxNxLxSLPxHLPHx

CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LTQLTKSNNQLTSLPDHLPHS LEVLDVSNNQLTSLPDHLPHS LEVLDVSNNQLTSLPDHLPHS LEVLDVSNNQLTSLPDHLPHS LEVLDVSNNQLTSLPDHLPHS LEVLDVSNNQLTSLPDHLPHS LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP


Rational5: LHxLxCSxNxLxSLPxxLPxH LHVLDVSNNQLTSLPDNLPAH


CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LHQLTKSNNQLTSLPDNLPAH LHVLDVSNNQLTSLPDNLPAH LHVLDVSNNQLTSLPDNLPAH LHVLDVSNNQLTSLPDNLPAH LHVLDVSNNQLTSLPDNLPAH LHVLDVSNNQLTSLPDNLPAH LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP


Rational6: LHHLxCSxNxLxSLPxxLPxx LHHLDVSNNQLTSLPDNLPAS


CPSRCSCSGTEIRCNSKGLTSVPTGIPSS ATRLELESNKLQSLPHGVFDK LHHLTKSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LHHLDVSNNQLTSLPDNLPAS LKELALDTNQLKSVPDGIFDR LTSLQKIWLHTNPWDCSCPRIDY LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP

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