All sessions will be held at the Student Activity Center (University campus)

FRIDAY, JUNE 27

 6:00pm - 8:00pm Registration and Reception at Danfords on the Sound

 Registration continues
 7:30 Continental breakfast (Student Activity Center)
 8:30 Welcome – Organizers
 8:40 Martin Schoonen, Associate Vice President for Research

INTRODUCTION: STRUCTURAL GENOMICS

 8:50 Honig, It's all in the family: Leveraging structural genomics

PROTEIN-PROTEIN DOCKING  25 Years of Protein-Protein Docking
Session chair: Sternberg

 9:30 Janin, Dissecting interfaces in protein-protein complexes and homodimers
10:00 Nussinov, Protein-protein interfaces: Stability, function and landscape
10:30 Coffee break
11:00 Olson, Back to the Future: A tangible approach to exploring protein interactions
11:30 Baker, Prediction, design, and kinetics of protein-protein interactions
12:00 Lunch

PROTEIN-PROTEIN DOCKING  25 Years of Protein-Protein Docking
Session chair: Janin

 1:30 Sternberg, Protein-protein docking using 3D-DOCK
 2:00 Abagyan, Docking energy landscapes and interface refinements
 2:30 Camacho, Integrated approach for protein-protein interactions: From Consensus to ClusPro to SmoothDock
 3:00 Coffee break
 3:30 Weng, RDOCK: Refinement of rigid-body protein docking predictions
 4:00 Ten Eyck, TBA
 4:30 Tovchigrechko, Evaluating docking potential based on evolutionary conservation of residues
 6:30 Dinner at SAC

POSTER SESSION

 8:00 -10:00 Poster presentations, open bar

ENERGETICS OF PROTEIN BINDING AND FOLDING, BINDING SITE PREDICTION
Session chair: McCammon

 7:30 Continental breakfast (Student Activity Center)
 8:30 Jernigan, Consensus binding site prediction
 9:00 Zhou HX, Prediction of interface residues in protein-protein complexes: Test against NMR data
 9:30 Vajda, Prediction of protein binding sites by computational solvent mapping
10:00 Godzik, Predicting interaction partners for structural genomics
10:30 Coffee break
11:00 Liang, Inferring functional relationship by discovery of local sequence and spatial patterns of protein surfaces
11:30 Marshall, Scoring functions for folding and docking
12:00 Zhou Y, Toward a unified structure-derived potential of mean force for folding and binding
12:30 Wolfson, Protein structure prediction via combinatorial docking of structural subunits
 1:00 Lunch

MACROMOLECULAR ASSEMBLIES AND MOLECULAR INTERACTIONS
Session chair: Olson

 2:30 McCammon, Modeling supramolecular protein structure
 3:00 Weinstein, Sliding towards specificity: Interfaces of protein-DNA interactions
 3:30 Wriggers, Combining structural data from a variety of biophysical sources by interior docking
 4:00 Eisenstein, Construction of molecular assemblies via docking: Modeling of tetramers with D2 symmetry
 4:30 Coffee break

DISCUSSION
(further developments in Critical Assessment Experiments for protein interactions)

 5:00 Wodak, Critical Assessment of Predicted Interactions (CAPRI): Major conclusions from docking predictions by about 20 groups on 9 targets
 5:30 Moult, CASP and beyond
 6:00 New directions - general discussion

 6:30 Departure for dinner
 7:30 Dinner at Port Jefferson Country Club
 9:00 Keynote address - 25 years of Protein-Protein Docking. Janin, The hard life of dockers

IDENTIFICATION OF INTERACTIONS AND PATHWAYS
Session chair: Jernigan

 7:30 Continental breakfast (Student Activity Center)
 8:30 Lichtarge, Evolutionary predictions of binding surfaces in proteins
 9:00 Valencia, Use of sequence information for the prediction of protein interactions
 9:30 Vakser, High-throughput protein-protein docking for entire genomes
10:00 Coffee break
10:30 Zhang, Combinatorial interaction of transcription factors in the yeast cell cycle regulation network
11:00 Maslov, Large scale topological properties of protein networks
11:30 Frishman, Bringing protein interactions into genomic context
12:00 Concluding remarks