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Modelling
From 2009.igem.org
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==To do== | ==To do== | ||
| - | <br>- Set up day of starting modeling, do a planning for modeling => see with Matteo Dal Peraro | + | <br>- Set up day of starting modeling, do a planning for modeling => see with Matteo Dal Peraro ----> will be setted up as soon as the exams are over |
| - | <br>- Model allosteric interactions between LOVTAP & TrpR | + | <br>- Model allosteric interactions between LOVTAP & TrpR: |
| + | What will be done: | ||
| + | :-> model of LOVTAP in dark phase | ||
| + | :-> model of LOVTAP in light phase | ||
| + | :-> characterize how the J-alpha helix changes | ||
| + | |||
<br>- Do a mutational assay to change specificity of LOVTAP: | <br>- Do a mutational assay to change specificity of LOVTAP: | ||
:Direct mutational assay: Insert mutation in specific sites thanks to the known structure of LOVTAP (already modeled on computer) | :Direct mutational assay: Insert mutation in specific sites thanks to the known structure of LOVTAP (already modeled on computer) | ||
:Indirect mutational assay: Random mutations, then selection of the "right" protein according to a set of selected conditions | :Indirect mutational assay: Random mutations, then selection of the "right" protein according to a set of selected conditions | ||
| + | |||
<br>- Model the fusion of LOV domain with other transcription factors | <br>- Model the fusion of LOV domain with other transcription factors | ||
Revision as of 14:00, 2 June 2009
To find
PDB files of LOV domain, TrpR repressor => http://www.rcsb.org/pdb/home/home.do
To do
- Set up day of starting modeling, do a planning for modeling => see with Matteo Dal Peraro ----> will be setted up as soon as the exams are over
- Model allosteric interactions between LOVTAP & TrpR:
What will be done:
- -> model of LOVTAP in dark phase
- -> model of LOVTAP in light phase
- -> characterize how the J-alpha helix changes
- Do a mutational assay to change specificity of LOVTAP:
- Direct mutational assay: Insert mutation in specific sites thanks to the known structure of LOVTAP (already modeled on computer)
- Indirect mutational assay: Random mutations, then selection of the "right" protein according to a set of selected conditions
- Model the fusion of LOV domain with other transcription factors
To envisage
- Molecular mutationnal assay
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