Protein Design Assistant searches for peptide fragments satisfying selection criteria related to residue polarity, secondary structure, residue type, and its location in the database protein (buried or solvent accessible).
ProDa searches for loops, regardless the structural environment. LoopFinder
, on the other hand, searches for loops that superpose well on 2, 3, or 4 residues before and after the insert. LoopFinder will scan the entire PDB
in minutes. It must run on your computer, so the code
are freely available.
Please use the following citation when referencing the results: