Predicting novel protein folds by using FRAGFOLD

Proteins. 2001;Suppl 5:127-32. doi: 10.1002/prot.1171.

Abstract

The results of applying a fragment-based protein tertiary structure prediction method to the prediction of 8 CASP4 targets are described. The method is based on the assembly of supersecondary structural fragments taken from highly resolved protein structures using a simulated annealing algorithm. Despite the significant degree of success in this case, there is clearly much more developmental work required before predictions with the accuracy of a good homology model, or even a good fold recognition model, can be made with use of this kind of approach.

MeSH terms

  • Bacteriocins / chemistry
  • Computer Simulation
  • Models, Molecular
  • Peptide Fragments / chemistry
  • Protein Conformation
  • Protein Folding*
  • Protein Structure, Tertiary
  • Sequence Analysis, Protein
  • Software*

Substances

  • Bacteriocins
  • Peptide Fragments
  • bacteriocin AS-48, Enterococcus faecalis