Home > Archives > Additional Archives > Adam Godzik   Adam Godzik, PhD The Burnham Institute, La Jolla, California -and- Joint Center for Structural Genomics, UCSD www.jcsg.org/bic.html Bioinformatics Challenges of Structural Genomics JCSG is a joint project between UCSD, TSRI and SLAC to develop a high throughput crystallography pipeline. While the engineering goal is to change the way structure determination is done, the scientific goal of the project is to identify and solve structures of a representative set of C. elegans and human proteins involved in signal transduction. Experimental components of JCSG are located at TSRI and SLAC and they focus on a complete automation and robotization of all steps leading from identifying a target protein to solving a crystal structure, such as cloning, expression, purification, crystallization, data collection and structure determination. At the same time, the bioinformatics component of JCSG, located at SDSC, faces its own challenges in providing a unified data management structure to the distributed experimental protocol as well as developing tools for large scale, automated pre- and post-structure determination analysis. An automated protocol to annotate large groups of proteins with predicted structural and functional information, developed at on the basis of a profile-profile fold recognition algorithm FFAS, enhanced by several other tools for modeling, alignment and structure visualization, assists in target selection, structure refinement and provides input for automated structure annotation. A unique tracking database automatically updates itself to provide public view on the progress in structure determination for all targets, and also doubles as a main data depository and internal analysis tools for JCSG. With first structures already solved and hundreds more in the advanced stages in the pipeline, JCSG is moving towards redefining the way the protein structures are determined.
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