Preliminary Agenda
Scientific program
The aim of this workshop is to explore how protein structure models are used in biomedical research projects today, which requirements and limitations exist for the different applications, and how the interaction between the experimental and computational research communities could be strengthened. In particular, we will address the criticisms of protein structure modeling raised by the NIH PSI review panel.
The workshop will start with scientific presentations on Friday, and continue with working group break-out sessions on Saturday morning. Conclusions and recommendations of the workshop, which should help to guide the development of modeling methods within the community and specifically of the protein model portal of the Protein Structure Initiative Structural Genomics Knowledgebase (PSI SGKB), will be summarized in a white paper.
Agenda
Friday, July 11, 2008
| 8:15 am | Arrival, Registration, Breakfast |
|
| 9:00 am | Welcome & Workshop Introduction | Torsten Schwede (SIB, Basel) Andrej Sali (UCSF) John Norvell (NIH/NIGMS) |
| 9:15 am | The PSI SG Knowledge Base | Helen Berman (RCSB) |
| 9:20 am | The Protein Model Portal (PSI SGKB) |
Torsten Schwede (SIB & Biozentrum Basel) |
| 9:40 am | Current Coverage of Protein Structure and Sequence Spaces |
Michael Levitt (Stanford University) |
| 10:00 am | Homology Models for Structure-based Drug Discovery |
Matt Jacobson (UCSF) |
| 10:20 am | Modeling of Protein Complexes by Docking and Low Resolution Experiments |
Sandor Vajda (Boston University) |
| 10:40 am | Coffee break |
|
| 11:10 am | Protein Interactions from a Comparative Perspective |
Daron M. Standley (Institute For Protein Research, Osaka) |
| 11:30 am | Protein Modeling for Protein Engineering and Design |
Tanja Kortemme (UCSF) |
| 11:50 am | Protein structure models for analysis of SNPs and disease-associated mutations |
John Moult (CARB) |
| 12:10 am | Methods for structure-based functional characterization of proteins |
Diana Murray (Columbia University) |
| 12:30 am | Lunch break |
|
| 2:00 pm | Applications of molecular modeling in cancer biology |
Roland Dunbrack (FCCC) |
| 2:20 pm | Modeling of membrane proteins |
Stanley Krystek (Bristol-Myers Squibb) |
| 2:40 pm | Benefits of a comprehensive structural characterization: For example, T. maritima metabolic network |
Adam Godzik (Burnham Institute) |
| 3:00 pm | Protein modeling for phasing in crystallography |
Rhiju Das (University of
Washington) |
| 3:20 pm | Integrative protein structure modeling |
Andrej Sali (UCSF) |
| 3:40 pm | Coffee break |
|
| 4:00 pm | Panel Discussion, preparation for Saturday working groups |
|
| 6:00 pm | End of Panel Discussion. |
|
Saturday, July 12, 2008
| 8:15 am | Breakfast | |
| 9:00 am | Breakout sessions with working groups on specific topics | |
| 10:30 am | Coffee break | |
| 11:00 am | Presentations of workgroup results & discussion | |
| 12:30 am | Work Lunch: Preparation of White Paper | |
| 2:00 pm | End of workshop |