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Proteomics: Sequence, Structure, FunctionWorkshop III: Structural ProteomicsMay 10 - 14, 2004Organizing Committee:
David Wild, Chair
(Keck Graduate Institute)
Introduction
A major obstacle to the exploitation of the large volume of genomic sequence data is the functional characterization of the gene products. At the time of writing, there are 146 published completely sequenced genomes, 344 ongoing prokaryotic and 243 ongoing eukaryotic sequencing projects. A large proportion, typically 30-40% of the predicted protein coding regions of these organisms' genomes code for proteins of unknown function. Annotation is normally inherited from database matches to similar sequences for which the function is known. New algorithms that make use of the information contained within alignments of multiple sequences are very effective at identifying distant sequence relationships. However, the definition of a match is parameter dependent and this procedure is open to the danger of error propagation. But even using sensitive sequence similarity detection methods a significant proportion of gene products cannot be reliably assigned function. Recently large-scale protein structure determination projects have got underway. These initiatives are variously referred to as 'structural genomics' or 'structural proteomics'. One goal is to carry out a comprehensive sampling of protein sequence space and the determination of structures representative of a given sequence neighborhood - such an approach would allow the structures of other sequences in the neighborhood to be obtained by the methods of comparative (homology) modeling. Since protein three-dimensional structure is more conserved than sequence these initiatives also open up the possibility of biochemical or biophysical functional characterization via structure. In parallel to these experimental programs are ongoing efforts to
address these questions using computational techniques. The focus of
this workshop will be on these computational methods and will discuss
the state of the art and current challenges in a variety of topics in
the field of structural proteomics, such as: Other links and events
SpeakersRuben Abagyan (Scripps College)Patrick Aloy (European Molecular Biology Laboratory) Patsy Babbitt (University of California at San Francisco) Steven Brenner (University of California at Berkeley) Ken Dill (University of California at San Francisco) Jacque Fetrow (Wake Forest University) Angel Garcia (Los Alamos National Laboratory) Adam Godzik (Burnham Institute) Nick Grishin (University of Texas, Southwestern Medical Center) Alexander Kister (Rutgers University) Arthur Lesk (Cambridge University) Oliver Lichtarge (Baylor College of Medicine) Edward Marcotte (University of Texas) John Moult (University of Maryland) Jose N. Onuchic (University of California at San Diego) George Rose (Johns Hopkins University) Ingo Ruczinski (Johns Hopkins University) Mansoor Saqi (Barts and The London School of Medicine and Dentistry) Scott Schmidler (Duke University) Jeffrey Skolnick (State University of New York, Buffalo) Sarah Teichmann (MRC Laboratory) James Watson (European Bioinformatics Institute) Contact Us:Institute for Pure and Applied Mathematics (IPAM) |
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