Volume One of this two-volume sequence focuses on the basic characterization of known protein structures, and structure prediction from protein sequence information. Eleven chapters survey of the field, covering key topics in modeling, force fields, classification, computational methods, and structure prediction. Each chapter is a self contained review covering definition of the problem and historical perspective; mathematical formulation; computational methods and algorithms; performance results; existing software; strengths, pitfalls, challenges, and future research.
Author(s): Ying Xu (Editor), Dong Xu (Editor), Jie Liang (Editor)
Edition: 1
Year: 2006
Language: English
Pages: 414
Contents......Page 14
Contributors......Page 16
1. A Historical Perspective and Overview of Protein Structure Prediction......Page 20
2. Empirical Force Fields......Page 63
3. Knowledge-Based Energy Functions for Computational Studies of Proteins......Page 88
4. Computational Methods for Domain Partitioning of Protein Structures......Page 141
5. Protein Structure Comparison and Classification......Page 162
6. Computation of Protein Geometry and Its Applications: Packing and Function Prediction......Page 196
7. Local Structure Prediction of Proteins......Page 222
8. Protein Contact Map Prediction......Page 270
9. Modeling Protein Aggregate Assembly and Structure......Page 293
10. Homology-Based Modeling of Protein Structure......Page 332
11. Modeling Protein Structures Based on Density Maps at Intermediate Resolutions......Page 371
C......Page 401
F......Page 402
M......Page 403
P......Page 404
S......Page 405
Y......Page 406
