A New Method for Finding Packing Patterns of Protein Ca Segments

OHKUBO Zenmei (zenmei@kuicr.kyoto-u.ac.jp)
Minoru Kanehisa

Institute for Chemical Research, Kyoto University


We have developed a new method for finding packing patterns of C-alpha segments. The method allows detecting in PDB (Protein Data Bank) several C-alpha segments which are spatially local but are apart on a sequence from one another. The data of those segments ("segment-sets") is an expression of the long distance interactions between amino acid residues and will be a great help to prediction of protein structures from their sequences.