Workshop III: Structural Proteomics - IPAM

Workshop III: Structural Proteomics

Part of the Long Program Proteomics: Sequence, Structure, Function
May 10 - 14, 2004

Schedule

All times in this Schedule are Pacific Time (PT)

Monday, May 10, 2004

Morning Session

08:30-09:15
Check-In/Light Breakfast (Hosted by IPAM)
09:15-09:30
Welcome and Opening Remarks
09:30-10:30
Arthur Lesk (Pennsylvania State University)
Structure and Evolution of the Globins: We thought we understood them
10:30-11:00
Break
11:00-12:00
Ken Dill (University of California at San Francisco)
Protein Folding: From physics to conformational searching.

Afternoon Session

12:00-14:00
Lunch (on your own)
14:00-15:00
George Rose (Johns Hopkins University)
Assessing the protein folding problem - theory and simulations
15:00-15:30
Break
15:30-16:30
Ingo Ruczinski (Johns Hopkins University)
Protein structure prediction using ROSETTA
16:30-16:45
Break
16:45-17:45
Steven Brenner (University of California at Berkeley)
Ancient protein evolutionary relationships inferred from structure
17:45
Wine/Cheese Reception (Hosted by IPAM)

Tuesday, May 11, 2004

Morning Session

08:30-09:30
Check-In/Light Breakfast (Hosted by IPAM)
09:30-10:30
Jose N. Onuchic (University of California, San Diego)
Exploring the protein funnel energy landscape for folding and function.
10:30-11:00
Break
11:00-12:00
Angel Garcia (Los Alamos National Laboratory)
Simulation of the folding / unfolding thermodynamics of protein A

Afternoon Session

12:00-14:00
Lunch (on your own)
14:00-15:00
Scott Schmidler (Duke University)
Statistical Shape Methods for Datamining in Protein Structure Databases
15:00-15:30
Break
15:30-16:30
Edward Marcotte (University of Texas)
Working towards accurate protein interaction maps and the human interactome
16:30-17:30
Adam Godzik (Burnham Institute)
FATCAT : Flexible structure alignment of proteins: lessons for comparative modeling and structural genomics

Wednesday, May 12, 2004

Morning Session

08:30-09:30
Check-In/Light Breakfast (Hosted by IPAM)
09:30-10:30
Patrick Aloy (European Molecular Biology Laboratory)
Structure-based assembly of protein complexes and networks
10:30-11:00
Break
11:00-12:00
Ruben Abagyan (Scripps College)
Predicting induced fit in docking and loop prediction

Afternoon Session

12:00-14:00
Lunch (on your own)
14:00-15:00
Jeffrey Skolnick (State University of New York, Buffalo)
Prediction of Protein Structure and Function on a Proteomic Scale
15:00-15:30
Break
15:30-16:30
Patricia Babbitt (University of California, San Francisco (UCSF))
A Model Linking Structure and Function in Mechanistically Diverse Enzyme Superfamilies
16:30-16:45
Break
16:45-17:45
John Moult (University of Maryland)
Annotation of Protein Misfunction: SNPs, Databases and Disease
17:45
Dinner (Hosted by IPAM)

Thursday, May 13, 2004

Morning Session

08:30-09:30
Check-In/Light Breakfast (Hosted by IPAM)
09:30-10:30
Oliver Lichtarge (Baylor College of Medicine)
Towards Large-Scale Identification and Specific Engineering of Protein Functional Sites
10:30-11:00
Break
11:00-12:00
Jacque Fetrow (Wake Forest University)
Synergies of computational and chemical proteomics methods: analysis of yeast serine hydrolases

Afternoon Session

12:00-14:00
Lunch (on your own)
14:00-15:00
James Watson (European Bioinformatics Institute)
Case Studies In Assigning Function From Structure In Structural Genomics
15:00-15:30
Break
15:30-16:30
Alexander Kister (Rutgers University)
The common structural and sequence features of the sandwich and barrel proteins. Application to the structural prediction and sequence classification

Friday, May 14, 2004

Morning Session

08:30-09:30
Check-In/Light Breakfast (Hosted by IPAM)
09:30-10:30
Sarah Teichmann (MRC Laboratory)
Evolution of Multi-Domain Proteins
10:30-11:00
Break
11:00-12:00
Nick Grishin (University of Texas, Southwestern Medical Center)
Remote homology inference: what are the limits?

Afternoon Session

12:00-13:00
Mansoor Saqi (Barts and The London School of Medicine and Dentistry)
Structural diversity within protein superfamilies: implications for remote homolog detection
13:00
Conclusion
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