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PhD Exit Seminar- Michael Dong
August 14, 2017 @ 1:00 pm - 2:00 pm
PhD Exit Seminar
Monday, August 14, 2017 at 1:10 pm, Earth Sciences Building, Room 3087
Michael Dong (Provart Lab)
“Protein-ligand interaction exploration based on proteome-wide tertiary structure prediction and further in vitro validation”
Knowledge of protein structures provides us valuable information for protein function elucidation, but currently it is still unrealistic to determine proteome-wide protein structures using experimental methods. Computational modeling provides us a fast and convenient method in protein structure characterization, and but to date, there hasn’t been any systematic application of proteome-wide models in Arabidopsis due to the lack of such data sets. Our lab has determined the theoretical protein structures for the entire Arabidopsis proteome. In this work, I presented two versions of Arabidopsis predicted structure-omes (APS-V1 and APS-V2) generated by the Phyre fold recognition engine and showed that a large portion of the predicted models in our APS have enough resolution for use in protein functional studies.
In our case, the predicted models were specifically used in protein-carbohydrate and protein-protein interaction studies followed by in vitro verification using carbohydrate arrays and yeast two-hybrid assays. The enrichment of real interactions in the prediction results confirmed that our Arabidopsis predicted structure-ome is a reliable tool in protein structural and functional studies. This work also provides another perspective in large-scale protein-ligand interaction exploration and biological network reconstruction using protein structural information.