Team:Freiburg/Notebook/10 June

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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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==Protein modelling==
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'''Investigators: Rüdiger'''
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3cvr bacterial ligase<br/>
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FSELQLNRLNLSSLPDNLPPQ<br/>
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ITVLEITQNALISLPELPAS<br/>
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LEYLDACDNRLSTLPELPAS<br/>
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LKHLDVDNNQLTXLPELPAL<br/>
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LEYINADNNQLTXLPELPTS
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LEVLSVRNNQLTFLPELPES
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EIFFRCRENRITHIPENILSLDP
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Extracted ideal consensus, by consensus sequence and 3d rational analysis:
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LEVLDVSNNQLTSLPDNLPAS
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N-Terminal Hagfish 2z66
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSSATRLELESNKLQSLPHGVFDK
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LTQLTK
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Consensus: xLxxLxxLxL
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C-Terminal Hagfish 2z62
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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LxxLxLxxNxLx Consensus
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Sequences 1-6 sent to I-Tasser for 3D structure prediction:
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Rational1:
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LxALHCSxNxLxSLPxxLPxx LxHLACSxNxLxSLPxxLPxx
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LTALHKSNNQLTSLPDNLPAS
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LEHLAVSNNQLTSLPDNLPAS
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LEALHVSNNQLTSLPDNLPAS
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LEHLAVSNNQLTSLPDNLPAS
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LEALHVSNNQLTSLPDNLPAS
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LEHLAVSNNQLTSLPDNLPAS
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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Rational2:
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LxxLxCSxNHLHSLPxxLPxx
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LTQLTKSNNHLHSLPDNLPAS
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LEVLDVSNNHLHSLPDNLPAS
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LEVLDVSNNHLHSLPDNLPAS
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LEVLDVSNNHLHSLPDNLPAS
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LEVLDVSNNHLHSLPDNLPAS
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LEVLDVSNNHLHSLPDNLPAS
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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Rational3:
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LxxLxCSxNxLxSLPHHLPxx
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LTQLTKSNNQLTSLPHHLPAS
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LEVLDVSNNQLTSLPHHLPAS
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LEVLDVSNNQLTSLPHHLPAS
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LEVLDVSNNQLTSLPHHLPAS
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LEVLDVSNNQLTSLPHHLPAS
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LEVLDVSNNQLTSLPHHLPAS
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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Rational4:
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LxxLxCSxNxLxSLPxHLPHx
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LTQLTKSNNQLTSLPDHLPHS
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LEVLDVSNNQLTSLPDHLPHS
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LEVLDVSNNQLTSLPDHLPHS
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LEVLDVSNNQLTSLPDHLPHS
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LEVLDVSNNQLTSLPDHLPHS
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LEVLDVSNNQLTSLPDHLPHS
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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Rational5:
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LHxLxCSxNxLxSLPxxLPxH
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LHVLDVSNNQLTSLPDNLPAH
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LHQLTKSNNQLTSLPDNLPAH
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LHVLDVSNNQLTSLPDNLPAH
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LHVLDVSNNQLTSLPDNLPAH
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LHVLDVSNNQLTSLPDNLPAH
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LHVLDVSNNQLTSLPDNLPAH
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LHVLDVSNNQLTSLPDNLPAH
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP
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Rational6:
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LHHLxCSxNxLxSLPxxLPxx
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LHHLDVSNNQLTSLPDNLPAS
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CPSRCSCSGTEIRCNSKGLTSVPTGIPSS
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ATRLELESNKLQSLPHGVFDK
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LHHLTKSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LHHLDVSNNQLTSLPDNLPAS
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LKELALDTNQLKSVPDGIFDR
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LTSLQKIWLHTNPWDCSCPRIDY
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LSRWLNKNSQKEQGSAKCSGSGKPVRSIICP

Revision as of 12:20, 8 July 2011

??.Labday

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.


Protein modelling

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

Retrieved from "http://2011.igem.org/Team:Freiburg/Notebook/10_June"