Patterns in Protein Sequence and Structure

Front Matter....Pages I-XII
Introduction — Patterns, Predictions and Problems....Pages 1-9
A Brief Review of Protein Sequence Pattern Matching....Pages 11-28
Multiple Sequence Alignment and Flexible Pattern Matching....Pages 29-52
Discussion....Pages 53-56
SCRUTINEER: a Program to Explore and Evaluate Protein Sequence Patterns in Databases....Pages 57-68
Patterns and Specificity — Nucleotide Binding Proteins and Helicases....Pages 69-83
Discussion....Pages 84-84
The Helix-Turn-Helix Motif and the Cro Repressor....Pages 85-95
Discussion....Pages 96-98
Assignment of α-Helices in Multiply Aligned Protein Sequences — Applications to DNA Binding Motifs....Pages 99-110
An Expert System for Secondary Structure Prediction....Pages 111-122
Discussion....Pages 123-125
Patterns in Secondary Structure Packing — a Database for Prediction....Pages 127-140
Secondary and Supersecondary Motifs in Protein Structures....Pages 141-155
Discussion....Pages 156-158
A Review of Methods for Protein Structure Comparison....Pages 159-188
Patterns of Sequence and 3-D Structure Variation in Families of Homologous Proteins: Lessons for Tertiary Templates and Comparative Modelling....Pages 189-204
Discussion....Pages 205-205
Modelling From Remote Sequence Similarity — Enveloped Virus Capsid Structure Modelled on the Non-Enveloped Capsid....Pages 207-225
Discussion....Pages 226-227
Structural Motifs of the Extracellular Matrix Proteins Laminin and Tenascin....Pages 229-254
A Sequence Motif in the Transmembrane Region of Tyrosine Kinase Growth Factor Receptors....Pages 255-261
Discussion....Pages 262-262