Multiscale Approaches to Protein Modeling

1. Lattice Polymers and Protein Models
Andrzej Kolinski

2. Multiscale Protein and Peptide Docking
Mateusz Kurcinski, Michał Jamroz, Andrzej Kolinski

3. Coarse-Grained Models of Proteins: Theory and Applications
Cezary Czaplewski, Adam Liwo, Mariusz Makowski, Stanisław Ołdziej, Harold A. Scheraga

4. Conformational Sampling in Structure Prediction and Refinement with Atomistic and Coarse-Grained Models
Michael Feig, Srinivasa M. Gopal, Kanagasabai Vadivel, Andrew Stumpff-Kane

5. Effective All-Atom Potentials for Proteins
Anders Irbäck, Sandipan Mohanty

6. Statistical Contact Potentials in Protein Coarse-Grained Modeling: From Pair to Multi-body Potentials
Sumudu P. Leelananda, Yaping Feng, Pawel Gniewek, Andrzej Kloczkowski, Robert L. Jernigan

7. Bridging the Atomic and Coarse-Grained Descriptions of Collective Motions in Proteins
Vincenzo Carnevale, Cristian Micheletti, Francesco Pontiggia, Raffaello Potestio

8. Structure-Based Models of Biomolecules: Stretching of Proteins, Dynamics of Knots, Hydrodynamic Effects, and Indentation of Virus Capsids
Marek Cieplak, Joanna I. Sułkowska

9. Sampling Protein Energy Landscapes – The Quest for Efficient Algorithms
Ulrich H. E. Hansmann

10. Protein Structure Prediction: From Recognition of Matches with Known Structures to Recombination of Fragments
Michal J. Gajda, Marcin Pawlowski, Janusz M. Bujnicki

11. Genome-Wide Protein Structure Prediction
Srayanta Mukherjee, Andras Szilagyi, Ambrish Roy, Yang Zhang

12. Multiscale Approach to Protein Folding Dynamics
Sebastian Kmiecik, Michał Jamroz, Andrzej Kolinski

13. Error Estimation of Template-Based Protein Structure Models
Daisuke Kihara, Yifeng David Yang, Hao Chen

14. Evaluation of Protein Structure Prediction Methods: Issues and Strategies
Anna Tramontano, Domenico Cozzetto

Keywords: Life Sciences, Protein Science, Protein Structure, Bioinformatics, Computational Biology/Bioinformatics