Team:EPF-Lausanne/Modeling

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Contents

                               


Modeling overview


Protein domain of interest

Our protein of interest is LOVTAP. This protein was sythetically engineered by [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=search&term=18667691 Sosnick] group. It is a fusion protein between a LOV domain (Avena Sativa phototropin 1) and the E. Coli tryptophan repressor. This protein undergoes changes under light activation as shown by Sosnick et al, in fact when the protein is activated by light it binds DNA and inversely. For more information about LOVTAP protein please click here.

Goal

Starting material

Both LOV domain crystallography files were obtained from [http://www.rcsb.org/pdb/home/home.do RCSB]:

[http://www.rcsb.org/pdb/explore/explore.do?structureId=2V0W Light activated LOV domain]
[http://www.rcsb.org/pdb/explore/explore.do?structureId=2V0U Dark LOV domain]

These crystallographies were done by [http://www.ncbi.nlm.nih.gov/pubmed/18001137 Halavaty et al.].

Molecular dynamics: a little theory