Introduction to Protein Structure Prediction: Methods and Algorithms (Wiley Series in Bioinformatics)

CONTENTS......Page 6
PREFACE......Page 8
CONTRIBUTORS......Page 11
1 INTRODUCTION TO PROTEINSTRUCTURE PREDICTION......Page 15
2 CASP : A DRIVING FORCE IN PROTEINSTRUCTURE MODELING......Page 28
3 THE PROTEIN STRUCTURE INITIATIVE......Page 46
4 PREDICTION OF ONE - DIMENSIONALSTRUCTURAL PROPERTIES OFPROTEINS BY INTEGRATEDNEURAL NETWORKS......Page 58
5 LOCAL STRUCTURE ALPHABETS......Page 88
6 SHEDDING LIGHT ONTRANSMEMBRANE TOPOLOGY......Page 119
7 CONTACT MAP PREDICTION BYMACHINE LEARNING......Page 148
8 A SURVEY OF REMOTE HOMOLOGYDETECTION AND FOLDRECOGNITION METHODS......Page 175
9 INTEGRATIVE PROTEIN FOLDRECOGNITION BY ALIGNMENTS ANDMACHINE LEARNING......Page 205
10 TASSER - BASED PROTEINSTRUCTURE PREDICTION......Page 229
11 COMPOSITE APPROACHES TOPROTEIN TERTIARY STRUCTUREPREDICTION: A CASE - STUDYBY I - TASSER......Page 253
12 HYBRID METHODS FOR PROTEINSTRUCTURE PREDICTION......Page 274
13 MODELING LOOPS INPROTEIN STRUCTURES......Page 287
14 MODEL QUALITY ASSESSMENTUSING A STATISTICAL PROGRAMTHAT ADOPTS A SIDE CHAINENVIRONMENT VIEWPOINT......Page 307
15 MODEL QUALITY PREDICTION......Page 330
16 LIGAND - BINDING RESIDUEPREDICTION......Page 350
17 MODELING AND VALIDATIONOF TRANSMEMBRANEPROTEIN STRUCTURES......Page 376
18 STRUCTURE - BASED MACHINELEARNING MODELS FORCOMPUTATIONAL MUTAGENESIS......Page 409
19 CONFORMATIONAL SEARCH FORTHE PROTEIN NATIVE STATE......Page 437
MODELING MUTATIONS IN PROTEINSUSING MEDUSA AND DISCRETEMOLECULE DYNAMICS......Page 459
INDEX......Page 483
COLOR PLATES......Page 507