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Investigation of Fam20C: Progress Report on Golgi Casein Kinase Analysis

This report documents the progress on the investigation of Fam20C, a Golgi casein kinase. We successfully uploaded and analyzed output pdb files using VMD and the FTProd plugin to identify consensus sites on the protein surface. We also explored the presence of water in the ADP binding pocket, observing ~65% occupancy during simulations. Ongoing qualitative analysis is being conducted, with updates shared daily with mentors. Future goals include confirming our findings and analyzing enthalpy-entropy compensation effects on the hinge residues of Fam20C.

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Investigation of Fam20C: Progress Report on Golgi Casein Kinase Analysis

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  1. Structure Investigation of Fam20C, A Golgi Casein Kinase Sharon Grubner National Taiwan University Seventh Weekly report – August 7th, 2013

  2. Progress • FTProd • Uploaded all output pdb files from FTMap together to VMD, aligned and analyzed them using the plugin FTProd in order to find ‘consensus’ sites on Fam20C surface • Read papers about electrostatics in context of drug discovery • VolMap • Using VMD plug-in VolMap, found that there is water present in the ADP binding pocket ~65% of the simulation time. • Continued qualitative analysis • My progress is being updated on a daily basis and shared with my mentors on Evernote.

  3. FTProd

  4. Goals for Next Week • FTProd • Confirm my ‘consensus’ sites analysis with my mentors and repeat some aspects of the analysis if necessary • VolMap • Confirm my water occupancy results with my mentors and continue analysis • Learn about enthalpy-entropy compensation and use that information to analyze the movement of Fam20C ‘hinge’ residues • Continue qualitative analysis

  5. Culture Shilin night market

  6. Acknowledgments • UCSD (University of California San Diego) • Dr. Gabriele Wienhausen • Dr. Peter Arzberger • Dr. RommieAmaro • Teri Simas • NTU (National Taiwan University) • Dr. Jung-HsinLin • Julia Brown Research Scholarship

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