Successful ab initio prediction of the tertiary structure of NK-lysin using multiple sequences and recognized supersecondary structural motifs.
A simple approach to protein tertiary structure prediction is described, based on the assembly of recognized supersecondary structural fragments taken from highly resolved protein structures by using a simulated annealing algorithm. The results of blind-testing this method on CASP2 target T0042 (pig NK-lysin) are presented. The predicted structure had a C alpha root-mean-square deviation of only 6.2 A from the experimental structure (and less than 5.0 A over the first 66 residues), and clearly had the correct fold when judged by using a number of objective measures. Despite the significant degree of success in this case, there is clearly much more development required before predictions with the accuracy of a good homology model can be made with this kind of approach.
Jones
D T
DT
Department of Biological Sciences, University of Warwick, Coventry, United Kingdom.
D000890:Anti-Infective Agents / Q000737:chemistry*; D000970:Antineoplastic Agents / Q000737:chemistry*; D001665:Binding Sites; D008958:Models, Molecular; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D011510:Proteolipids / Q000737:chemistry*; D011663:Pulmonary Surfactants / Q000737:chemistry*
D000890:Anti-Infective Agents; D000970:Antineoplastic Agents; C093238:NK-lysin; D011510:Proteolipids; D011663:Pulmonary Surfactants