Contents

• Contents
• abstract
• Introduction
• Methods
  • Database of unique protein 3D structural domains
  • Alignment of secondary structures
  • Filters
    • Removing un-compact structures
    • Loop length distance restraints
    • Poor sheets
    • Adjacent parallel structures
    • Distance restraints
    • Consistency &Redundancy
    • Maps removed by each filter
  • Fitting sequences on to 3D structures
  • Protein Structure Patterns for Evaluation
  • Cross-validation
  • Computational details
• Results
  • Assessing accuracy
  • Searches with eleven test proteins
  • Fold recognition from published predictions
    • The vWF domain
    • The Proteasome
    • The phosphotyrosine interaction domain
• Discussion &Conclusions
• Acknowledgements
• Abbreviations
• Figure and Table Legends
  • Figure 1
  • Figure 2
  • Figure 3
  • Table 6
  • Table 7
• Figures
• Tables
• References
• About this document ...